METHOD FOR THE DETECTION AND/OR IDENTIFICATION OF A MICROORGANISM

Abstract

The present invention relates generally to a method of identifying micro-organisms in a sample and in particular to the identification of prokaryotic micro-organisms. In some embodiments, the present invention relates to a method for the detection and/or identification of at least one microorganism or for the simultaneous detection and/or identification of several microorganisms in a test sample wherein the test sample is contacted with one or more probes derived from a tuf gene variable region.

Description

RELATED APPLICATIONS

[0001] This application is a continuation of U.S. patent application Ser. No. 11/989,509, filed Feb. 27, 2009, pending, which is the U.S. national phase, pursuant to 35 U.S.C. §371, of PCT international application Ser. No. PCT/AU2006/001056, filed Jul. 27, 2006, designating the United States and published in english on Feb. 1, 2007 as publication WO 2007/012,131 A1, which claims priority to Australian patent application Ser. No. 2005904015, filed Jul. 27, 2005. The entire disclosure of the aforementioned patent applications are incorporated herein by this reference.

FIELD

[0002] The present invention relates generally to a method of identifying micro-organisms in a sample and in particular to the identification of prokaryotic micro-organisms. The method of the present invention is useful, inter alia, for the prognosis, diagnosis, prevention, and treatment of diseases associated with pathogens (including human pathogens) and in particular to diseases such as respiratory infections, gastrointestinal tract infections, dermal infection, genital tract infections and nosocomial infections. The present invention also relates to kits used for identifying microorganisms, particularly prokaryotic micro-organisms.

BACKGROUND

[0003] Currently, the standard method used for the diagnosis of bacterial infections is the culture of clinical samples obtained from patients. Culture techniques have been used for many years for clinical diagnosis. Apart from being slow, time-consuming and labour intensive, the reliability of results obtained by culture techniques is very low. Consequently, this has hindered the prescription of effective drugs for treating bacterial infections, resulting in more patient suffering and/or death.

[0004] Other shortcomings of present methods of microbial identification include the need for special growth media, the inability to distinguish between closely related species and strains, and the need for large amounts of sample. Importantly, previous methods of microbial detection have found it difficult to simultaneously detect more than one micro-organism in a sample. Consequently, there is a need to develop methods of identifying micro-organisms in samples which are rapid, sensitive and accurate.

SUMMARY

[0005] Accordingly, in a first aspect the invention provides a method for the detection and/or identification of at least one microorganism or for the simultaneous detection and/or identification of several microorganisms in a test sample comprising:

[0006] (a) providing a test sample suspected of containing one or more target microorganisms;

[0007] (b) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) from said test sample, if present in the test sample, the or each said polynucleic acid comprising at least a portion of a tuf gene variable region;

[0008] (c) contacting said test sample or said polynucleic acid from said test sample with one or more probes derived from said tuf gene variable region for a time and under conditions sufficient for hybridization to take place; and

[0009] (d) detecting any hybridization which has taken place in step (c); wherein the presence or absence of hybridization is indicative of the presence or absence of said one or more said microorganisms in said test sample.

[0010] It is preferable that the polynucleic acid in said test sample is amplified, for example, using an amplification technique such as polymerase chain reaction (PCR).

[0011] Accordingly, in a second aspect the present invention provides a method for the detection and/or identification of at least one microorganism or for the simultaneous detection and/or identification of several microorganisms in a test sample comprising:

[0012] (a) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) to be detected;

[0013] (b) optionally, amplifying at least a portion of a tuf gene variable region from said microorganism(s) with at least one primer pair;

[0014] (c) contacting said test sample or said polynucleic acid from said test sample with one or more probes derived from said tuf gene variable region for a time and under conditions sufficient for hybridization to take place; and

[0015] (d) detecting any hybridization which has taken place in step (c); wherein the presence or absence of hybridization is indicative of the presence or absence of said one or more said microorganisms in said test sample.

[0016] In some embodiments the polynucleic acid is derived from a tuf gene variable region as shown in SEQ ID NOs.:1 to 11. Preferably, the polynucleic acid consists essentially of nucleotides 108-220, 393-591, 708-774, 792-816, and/or 885-945 of SEQ ID NOs.:1 to 11.

[0017] In other embodiments the polynucleic acid has a sequence which is antisense to a tuf gene variable region as shown in SEQ ID NOs.:1 to 11. Preferably, the polynucleic acid is consists essentially of nucleotides antisense to the nucleotides 108-220, 393-591, 708-774, 792-816, and/or 885-945 of SEQ ID NOs.:1 to 11.

[0018] In some embodiments, the step of contacting the test sample comprises hybridization with at least a portion of a tuf gene variable region with a set of probes comprising at least one probe selected from the group consisting of SEQ ID NOs:12 to 84, 208 to 251, 254-315 and 330 to 393.

[0019] Accordingly, in a third aspect the present invention provides a method for the detection and/or identification of at least one microorganism or for the simultaneous detection and/or identification of several microorganisms in a test sample comprising:

[0020] (a) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) to be detected;

[0021] (b) optionally, amplifying at least a portion of a tuf gene variable region from said microorganism(s) with at least one primer pair;

[0022] (c) hybridizing at least a portion of a tuf gene variable region from said microorganism(s) with a set of probes comprising at least one probe selected from the group consisting of SEQ ID NOs: 12 to 84, 208 to 251, 254-315 and 330 to 393;

[0023] (d) detecting hybrids formed in step (c); and

[0024] (e) identifying said at least one microorganism from said detecting of step (d).

[0025] In other embodiments, the at least one probe is selected from the group consisting of SEQ ID NOs: 12 to 84, 208 to 315 and 330 to 393. In other embodiments, the at least one probe is selected from the group consisting of SEQ ID NOs:12 to 392 and 393.

[0026] In a fourth aspect, the present invention provides a method for the diagnosis and/prognosis of a disease associated with a target microorganism comprising:

[0027] (a) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) to be detected;

[0028] (b) optionally, amplifying at least a portion of a tuf gene variable region from said microorganism(s) with at least one primer pair;

[0029] (c) contacting said test sample or said polynucleic acid from said test sample with one or more probes derived from said tuf gene variable region for a time and under conditions sufficient for hybridization to take place; and

[0030] (d) detecting any hybridization which has taken place in step (c); wherein the presence or absence of hybridization is indicative of the presence or absence of the target microorganism in said test sample;

[0031] (e) associating the presence of said one or more said target microorganisms with a disease; and

[0032] (f) determine diagnosis and/or prognosis for said disease.

[0033] In a fifth aspect, the present invention provides a method for the prevention or treatment of a disease associated with a target microorganism comprising:

[0034] (a) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) to be detected;

[0035] (b) optionally, amplifying at least a portion of a tuf gene variable region from said microorganism(s) with at least one primer pair;

[0036] (c) contacting said test sample or said polynucleic acid from said test sample with one or more probes derived from said tuf gene variable region for a time and under conditions sufficient for hybridization to take place; and

[0037] (d) detecting any hybridization which has taken place in step (c); wherein the presence or absence of hybridization is indicative of the presence or absence of the target microorganism in said test sample;

[0038] (e) associating the presence of said one or more said target microorganisms with a disease; and

[0039] (f) prescribing prevention or treatment of said disease.

[0040] In some embodiments, the step of associating the presence of one or more target microorganisms with a disease or the step of prescribing a treatment comprise the step of using a computer program.

[0041] In some embodiments, the disease may be a bacterial infection, respiratory infection, gastrointestinal tract infection, dermal infection, bloodstream infection, meningitis or central nervous system infection, urinary tract infection, genital tract infection, wound infection, or nosocomial infection.

[0042] In some embodiments, the microorganism detected and/or identified is selected from the group consisting of Bordetella species, Chlamydophila species, Haemophilus species, Legionella species, Mycoplasma species, Mycobacterium, species, Staphylococcus species, Streptococcus species, Pseudomonas species, Moraxella species and Fusobacterium species, Stenotrophomonas species, Burkholderi species, Enterococcus species, Corynebacterium species and Neisseria species.

[0043] In some embodiments, the step of amplifying at least a portion of a tuf gene variable region from the microorganism(s) utilizes at least one primer pair, wherein at least one of the primers is selected from the group consisting of SEQ ID NOs:394-396, or equivalents thereof, provided said equivalents specifically amplify the tuf variable region or a part thereof of different species of microorganism at the same time.

[0044] In a sixth aspect, the present invention provides a composition comprising at least one probe selected from the group consisting of SEQ ID NOs:12-393 or equivalents thereof, provided that said equivalents specifically bind to a tuf gene variable region of a microorganism to be detected.

[0045] In a seventh aspect, the present invention provides a composition comprising at least one primer selected from the group consisting of SEQ ID NOs:394-396, or equivalents thereof, provided said equivalents specifically amplify the tuf gene variable region or a part thereof of a microorganism to be detected.

[0046] In an eighth aspect, the present invention provides an oligonucleotide probe for the detection and/or identification of at least one microorganism found in test sample selected from the group consisting of Bordetella species, Chlamydophila species, Haemophilus species, Legionella species, Mycoplasma species, Mycobacterium species, Staphylococcus species, Streptococcus species, Pseudomonas species, Moraxella species and Fusobacterium species, Stenotrophomonas species, Burkholderi species, Enterococcus species, Corynebacterium species and Neisseria species, wherein said probe is selected from the group consisting of:

for Haemophilus influenzae:

TABLE-US-00001 TATTATCCGTACAGGTGATGAAGTAGAAA; (SEQ ID NO.: 12) AAAGATACAGCGAAAACTACTGTAACG; (SEQ ID NO.: 13) CATCGGTGCATTATTACGTGGTAC; (SEQ ID NO.: 14) CATACTCCATTCTTCAAAGGTTACCG; (SEQ ID NO.: 15) TGACTGGTACAATCGAATTACCAGAA; (SEQ ID NO.: 16) CCGTAAATTACTTGACGAAGGTCG; (SEQ ID NO.: 17) ACTTCGAATC AGAAGTGTAC; (SEQ ID NO.: 64) CAAACGTGAA GAAATCGAAC; (SEQ ID NO.: 65) CGATAACATC AAGATGACAG T; (SEQ ID NO.: 66)

for Moraxella catarrhalis:

TABLE-US-00002 TGAGCGTGACATCGATAAGTCA; (SEQ ID NO.: 18) CAGGCATTATTAAAGTTGGTGATGAAATT; (SEQ ID NO.: 19) AAACCAACTACTAAAACCACTTGTACTG; (SEQ ID NO.: 20) CGTAAGCTGCTAGACGAAGGT; (SEQ ID NO.: 21) TACCCCATTCCTAAATGGCTATCG; (SEQ ID NO.: 22) TAACTGGTGCCATCACCCTAC; (SEQ ID NO.: 23) AGTTTGATGCAGAAGTATACG (SEQ ID NO.: 208) TATCCTACTACGTGGTACTAA (SEQ ID NO.: 209) ATAACGTTGAGATGAGCG (SEQ ID NO.: 210)

for Enterococcus faecalis:

TABLE-US-00003 AAGGCGACGAGTCTTATGAAGA; (SEQ ID NO.: 24) AATTAATGGCTGCAGTTGACGAAT; (SEQ ID NO.: 25) GAAGTTCGCGTTGGTGACG; (SEQ ID NO.: 26) GACGAAACATCTAAAACAACTGTTACAG; (SEQ ID NO.: 27) TGGTGTTGTAGAATTGCCAGAAG; (SEQ ID NO.: 28) TAAACCAGCTACAATCACTCCACA; (SEQ ID NO.: 29)

for Staphylococcus aureus:

TABLE-US-00004 GTTGACATGGTTGACGATGAAGAATTA; (SEQ ID NO.: 30) CTTAGAATTAATGGAAGCTGTAGATACTTACA; (SEQ ID NO.: 31) ATCATCGGTTTACATGACACATCTAAAA; (SEQ ID NO.: 32) CACCACATACTGAATTTAAAGCAGAAGTA; (SEQ ID NO.: 33) CATTCTTCTCAAACTATCGTCCACAA; (SEQ ID NO.: 34) CTGGTGTTGTTCACTTACCAGAAG; (SEQ ID NO.: 35) TACTGAAATGGTAATGCCTGGTGATA; (SEQ ID NO.: 36) CCAATCGCGATTGAAGACGG; (SEQ ID NO.: 37) CTGGTTCAGCATTAAAAGCTTTAGAAG; (SEQ ID NO.: 38) TGACAACATTGGTGCATTATTACGT; (SEQ ID NO.: 39) TGTTACAGGTGTTGAAATGTTCCG; (SEQ ID NO.: 40) GTATTATCAAAAGACGAAGGTGGACG; (SEQ ID NO.: 41) GCGATGCTCAATACGAAGAAAAAATC; (SEQ ID NO.: 42) TGAATTCAAA GCAGAAGTAT AC; (SEQ ID NO.: 76) ATTATTACGT GGTGTTGCTC; (SEQ ID NO.: 77) GTGATAACGT TGAAATGACA G; (SEQ ID NO.: 78)

for Staphylococcus epidermidis:

TABLE-US-00005 TAGACTTAATGCAAGCAGTTGATGATTAC; (SEQ ID NO.: 43) CCACACACAAAATTCAAAGCTGAAG; (SEQ ID NO.: 44) CTGGTGTTGTAAACTTACCAGAAGG; (SEQ ID NO.: 45) GAAATGGTTATGCCTGGCGAC; (SEQ ID NO.: 46) CTGGTTCTGCATTAAAAGCATTAGAAG; (SEQ ID NO.: 47) TGACAACATCGGTGCTTTATTACG; (SEQ ID NO.: 48) CTGTTACTGGTGTAGAAATGTTCCG; (SEQ ID NO.: 49) CGTATTATCTAAAGATGAAGGTGGACG; (SEQ ID NO.: 50)

for Pseudomonas aeruginosa:

TABLE-US-00006 AAGTTCGAGTGCGAAGT; (SEQ ID NO.: 51) AAGGCGTAGAGATGGTAAT; (SEQ ID NO.: 52) TTCTTCAAGGGCTACCG; (SEQ ID NO.: 53) ATCATCAAGGTCCAGGAAGAAGT; (SEQ ID NO.: 54) ACCAAGACTACCTGCACCG; (SEQ ID NO.: 55) TGTACGTGCTGTCCAAGGAA; (SEQ ID NO.: 56) CCGGTAACTGCGAACTGC; (SEQ ID NO.: 57) CACGTTGACTGCCCCGGTCACGC; (SEQ ID NO.: 85) ACGCCTTCCGGCAGTTCGCAGTTAC; (SEQ ID NO.: 86) ATCGGTCACGTTGACCATGGCA; (SEQ ID NO.: 87) GCCGCCTTCGCGGATCGCGAA; (SEQ ID NO.: 88)

for Bordetella pertussis:

TABLE-US-00007 GTACATTCTG TCCAAGGAAG; (SEQ ID NO.: 58) GACAACGTGG GTATCTTG; (SEQ ID NO.: 59) GACAAGGAAA TGGTGCT; (SEQ ID NO.: 60)

for Chlamydophila pneumoniae:

TABLE-US-00008 AATTTAAGTC AGCTGTTTAC G; (SEQ ID NO.: 61) GAGGTATTGG AAAGAACGAT; (SEQ ID NO.: 62) ATAACGTTGA GCTTGATGTT; (SEQ ID NO.: 63)

for Legionella pneumophila:

TABLE-US-00009 AGTTTGAAGC AGAAGTGTAT; (SEQ ID NO.: 67) TGTTATTACG AGGTACGAAG; (SEQ ID NO.: 68) AGATAATGTG CAATTAGTTG TTA; (SEQ ID NO.: 69)

for Mycoplasma pneumoniae:

TABLE-US-00010 GAAATTTAAA GCGGAAATCT ATG; (SEQ ID NO.: 70) GAACGTGGTC AAGTGTTAG; (SEQ ID NO.: 71) GACAATACCT CGATTACAGT; (SEQ ID NO.: 72)

for Mycobacterium tuberculosis

TABLE-US-00011 AACATCTCGG TGAAGTTGAT; (SEQ ID NO.: 73) TGACAACACC AACATCTC; (SEQ ID NO.: 74) ACGAAGGTCT GCGTTT; (SEQ ID NO.: 75)

for Streptococcus pneumoniae

TABLE-US-00012 AATTCAAAGG TGAAGTCTAC A; (SEQ ID NO.: 79) CAACGTGATG AAATCGAAC; (SEQ ID NO.: 80) GACAATCGAC GTTGAGTT; (SEQ ID NO.: 81)

for Streptococcus pyogenes

TABLE-US-00013 CAAAGGTGAA GTATATATCC TTTC; (SEQ ID NO.: 82) CAACGTGACG AAATCGAA; (SEQ ID NO.: 83) CGTGACAATC AACGTTGA; (SEQ ID NO.: 84)

and combinations thereof.

[0047] In a ninth aspect, the present invention provides a method of hybridization comprising contacting a test sample suspected of containing a polynucleic acid with a solid support, which has immobilized thereon one or more probes selected from the group consisting of SEQ ID NOs: 12-392 and 393.

[0048] In some embodiments, certain aspects of the invention are provided as kits.

[0049] Accordingly, in a tenth aspect, the present invention provides a kit for the detection and/or identification of at least one microorganism or the detection and/or identification of several microorganisms simultaneously in a test sample, comprising

[0050] (a) optionally, at least one primer pair allowing amplification of at least a portion of a tuf gene variable region;

[0051] (b) the composition according to the sixth aspect;

[0052] (c) a buffer, or components necessary to produce the buffer enabling a hybridization reaction between the probe(s) contained in said composition and a polynucleic acid present in the sample, or the amplified products thereof;

[0053] (d) a solution, or components necessary for producing the solution, enabling washing of the hybrids formed under the appropriate wash conditions;

[0054] (e) optionally, a means for detecting the hybrids resulting from the preceding hybridization.

[0055] In an eleventh aspect, the present invention provides a method for the detection and/or identification of at least one microorganism or for the simultaneous detection and/or identification of several microorganisms in a sputum sample comprising the steps of

[0056] (a) optionally, releasing, isolating and/or concentrating polynucleic acids from said at least one microorganism(s) to be detected;

[0057] (b) optionally, amplifying at least a portion of a tuf gene variable region from said microorganism(s) with at least one primer pair;

[0058] (c) hybridizing at least a portion of a tuf gene variable region from said microorganism(s) with a set of probes comprising at least one probe selected from the group consisting of SEQ ID NOs: 12 to 84, 208 to 251, 254-315 and 330 to 393;

[0059] (d) detecting hybrids formed in step (c);

[0060] (e) identifying said at least one microorganism from said detecting of step (d).

[0061] In a twelfth aspect, the present invention provides a microarray comprising at least one probe selected from the group consisting of SEQ ID NOs: 12-393 or equivalents thereof, provided that said equivalents specifically bind to the tuf gene variable region of a microorganism.

BRIEF DESCRIPTION OF THE FIGURES

[0062] FIG. 1 is a PCR amplification of the tuf gene fragment. Lane 1, DNA standard marker; lane 2, Streptococcus pneumoniae; Lane 3, Moraxella catarrhalis; Lane 4, Legionella pneumophila; Lane 5, Staphylococcus aureus; Lane 6, Haemophilus influenzae.

[0063] FIG. 2 shows the detection of Streptococcus pneumoniae. Tests 1, 2 and 3-positive test results in duplicate indicating the presence of Streptococcus pneumoniae, one of the causative agents of bacterial pneumonia.

[0064] Test 1--SEQ ID NO.:79

[0065] Test 2--SEQ ID NO.:80

[0066] Test 3--SEQ ID NO.:81

[0067] FIG. 3 shows the detection of Moraxella catarrhalis. Tests 1, 2 and 3-positive test results in duplicate indicating the presence of Moraxella catarrhalis, one of the causative agents of chronic obstructive pulmonary disease.

[0068] Test 1--SEQ ID NO.:208

[0069] Test 2--SEQ ID NO.:209

[0070] Test 3--SEQ ID NO.:210

[0071] FIG. 4 shows the detection of Legionella pneumophila. Tests 1, 2 and 3-positive test results in duplicate indicating the presence of Legionella pneumophila, the main causative agent of Legionnaire's disease.

[0072] Test 1--SEQ ID NO.:67

[0073] Test 2--SEQ ID NO.:68

[0074] Test 3--SEQ ID NO.:69

[0075] FIG. 5 shows the detection of Staphylococcus aureus. Tests 1, 2 and 3-positive test results in duplicate indicating the presence of Staphylococcus aureus, one of the causative agents of soft tissue infections and pneumonia in the elderly.

[0076] Test 1--SEQ ID NO.:76

[0077] Test 2--SEQ ID NO.:77

[0078] Test 3--SEQ ID NO.:78

[0079] FIG. 6 shows the detection of Haemophilus influenzae. Tests 1, 2 and 3, positive test results in duplicate indicating the presence of Haemophilus influenzae, one of the causative agents of bacterial pneumonia.

[0080] Test 1--SEQ ID NO.:64

[0081] Test 2--SEQ ID NO.:65

[0082] Test 3--SEQ ID NO.:66

DETAILED DESCRIPTION

[0083] Before describing preferred embodiments in detail, it is to be understood that the terminology used herein is for the purpose of describing particular embodiments of the invention only and is not intended to be limiting.

[0084] All publications, patents and patent applications cited herein, whether supra or infra, are hereby incorporated by reference in their entirety. However, publications mentioned herein are cited for the purpose of describing and disclosing the protocols and reagents which are reported in the publications and which might be used in connection with the invention. Nothing herein is to be construed as an admission that the invention is not entitled to antedate such disclosure by virtue of prior invention.

[0085] The practice of the present invention will employ, unless otherwise indicated, conventional techniques of microbiology and molecular biology which are within the skill of the art. Such techniques are described in the literature. See, for example, Immunochemical Methods in Cell and Molecular Biology (Mayer and Walker, eds., Academic Press, London, 1987); "Molecular Cloning: A Laboratory Manual", 2^nd Ed., (ed. by Sambrook, Fritsch and Maniatis) (Cold Spring Harbor Laboratory Press: 1989); "Nucleic Acid Hybridization", (Hames & Higgins eds. 1984); "Oligonucleotide Synthesis" (Gait ed., 1984); Remington's Pharmaceutical Sciences, 17^th Edition, Mack Publishing Company, Easton, Pa., USA.; "The Merck Index", 12^th Edition (1996), Therapeutic Category and Biological Activity Index; and "Transcription & Translation", (Hames & Higgins eds. 1984).

[0086] It must be noted that as used herein and in the appended claims, the singular forms "a," "an," and "the" include plural reference unless the context clearly dictates otherwise. Thus, for example, a reference to "a micro-organism" includes a plurality of microorgansims and "a nucleic acid molecule" refers to a plurality of nucleic acid molecules, and so forth.

[0087] Unless defined otherwise, all technical and scientific terms used herein have the same meanings as commonly understood by one of ordinary skill in the art to which this invention belongs.

[0088] In the description that follows, if there is no instruction, it will be appreciated that cell culture techniques are well-known in this field and any such technique may be adopted.

[0089] Although any materials and methods similar or equivalent to those described herein can be used to practice or test the present invention, the preferred materials and methods are now described.

[0090] By "comprising" is meant including, but not limited to, whatever follows the word comprising". Thus, use of the term "comprising" indicates that the listed elements are required or mandatory, but that other elements are optional and may or may not be present. By "consisting of" is meant including, and limited to, whatever follows the phrase "consisting of". Thus, the phrase "consisting of" indicates that the listed elements are required or mandatory, and that no other elements may be present. By "consisting essentially of" is meant including any elements listed after the phrase, and limited to other elements that do not interfere with or contribute to the activity or action specified in the disclosure for the listed elements. Thus, the phrase "consisting essentially of" indicates that the listed elements are required or mandatory, but that other elements are optional and may or may not be present depending upon whether or not they affect the activity or action of the listed elements.

[0091] In work leading up to the present invention, the inventors discovered that the tuf gene contained variable region which differed between different microorganisms and therefore could be used to identify different microorganisms. Different microorganisms in a test sample can be identified by detecting hybridization between the variable region and a probe specific for the variable region.

[0092] Therefore, the present invention relates to polynucleic acid derived from a tuf gene variable region. As used herein, a "gene" is a polynucleic acid molecule that contains the information for a specific function, such as the sequence encoding a specific protein. Genes may also comprise non-coding information, such as one or more of a signal sequence, an origin of replication, an enhancer element, a promoter, and/or a transcription termination sequence. The term "polynucleic acid" as used herein designates mRNA, RNA, cRNA, cDNA or DNA.

[0093] The tuf genes are universally present in all bacteria and generally comprise uniform sequences i.e., sequence in common between all species. Examples of other universal bacterial genes include the 16s ribosomal RNA, 23s ribosomal RNA, and rpoB. Examples of tuf sequences of different microorganisms are set out in SEQ ID Nos.: 1 to 11.

[0094] It will be appreciated by those skilled in the art that the sequences disclosed herein may vary from the sequences provided in any of SEQ ID NOs.:1 to 11, without departing from the invention. In particular, the tuf gene sequence might vary by up to 30%, provided that a biological activity of the variant is retained. Specifically, the variant must have a variable region which can be used to identify a target microorganism.

[0095] A "tuf gene variable region" is those nucleotide sequences which vary in the tuf gene between species, subspecies, and substrains of a microorganism. In some embodiments, the tuf gene variable region consists essentially of nucleotides 108-220, 393-591, 708-774, 792-816, and/or 885-945 of SEQ ID NOs.:1 to 11.

[0096] In some embodiments, the tuf gene variable region is from Berkholderia cepacia, which can be used to specifically identify this species in sputum samples of patients with cystic fibrosis. In some embodiments, one or more of SEQ ID Nos.:269 to 275, which correspond to tuf gene variable region of Berkholderia cepacia, can be used.

[0097] In other embodiments, the tuf gene variable region is from the tuf gene of Stenotrophomonas maltophilia, which can be used to specifically identify this species in sputum samples of patients with pneumonia subsequent to a Pseudomonas aeruginosa infection. In some embodiments, one or more of SEQ ID NO.:264 to 268, which correspond to tuf gene variable regions of Stenotrophomonas maltophilia, can be used.

[0098] As used herein, a polynucleic acid comprises at least some part of a tuf gene including a tuf gene variable region or is derived from a tuf gene. The polynucleic acid sequence may have the nucleotide sequence of an entire tuf gene per se or a part thereof as long as it contains at least one tuf gene variable region or part thereof. The polynucleic acid may also be antisense to the tuf gene. In the present invention, the term "antisense" is used to denote a nucleic acid molecule which is DNA or RNA with a complementary sequence to the tuf gene variable region of the gene.

[0099] According to the invention the tuf gene variable region is used to identify a target microorganism in a test sample. The test sample may be any type of sample suspected of containing a target micro-organism. Consequently, test samples for analysis by the methods of the present invention may be obtained from numerous sources. Such sources include, but are not limited to, samples derived from animal subjects such as humans; flowers; seeds, vegetables; food; and samples derived from the environment. In some embodiments, the test sample is a "biological sample". Reference to a "biological sample" should be understood as a reference to any sample of biological material derived from an animal such as, but not limited to, blood, saliva, urine, tears, sweat, cerebrospinal fluid, lymph fluid, serum, plasma, mucus, sputum, faeces, and biopsy specimens.

[0100] The biological sample which is tested according to the methods of the present invention may be tested directly or may require some form of treatment prior to testing. For example, a biopsy sample may require homogenisation prior to testing. Further, to the extent that the biological sample is not in liquid form, (for example it may be a solid, semi-solid or dehydrated liquid sample) it may require the addition of a reagent, such as a buffer to mobilise the sample.

[0101] The test sample may also require processing to release any polynucleic acid prior to testing. For example, the polynucleic acid can be released using a lysis buffer, such as a commercially available lysis solution. A suitable commercially available lysis solution for bacteria is the Lyse-N-Go® (Pierce Biotechnology Inc, Rockford Ill., USA) PCR reagent. Once released the polynucleic acid is available for testing by the methods of the invention.

[0102] Alternatively or in addition the test sample may be subjected to a purification step such that the polynucleic acid in the test sample is isolated, concentrated or separated.

[0103] An "isolated" polynucleic acid is one which has been released and/or separated and/or recovered from a component of its natural environment. Contaminant components of its natural environment are materials that would typically interfere with identification of a target microorganism and may include enzymes, hormones, and other proteinaceous or non-proteinaceous solutes. In some embodiments, a polynucleic acid will be purified and/or concentrated (1) to a degree sufficient to obtain at least 30 to 45 bases of nucleotide sequence information, and/or (2) to homogeneity by gel electrophoresis.

[0104] In isolating the polynucleic acid the test sample may be subjected to a number of different processing steps, such as tissue homogenation, cell isolation and cytoplasmic extraction, nucleic acid extraction and the like. Methods of isolating nucleic acids from cells, tissues, organs or whole organisms are known to those of ordinary skill in the art and are described, for example, in Maniatis et al. (Molecular Cloning: A Laboratory Manual, Cold Spring Harbour Laboratory Press, 1989) and in Ausubel et al, (Current Protocols in Molecular Biology, John Wiley & Sons, Inc 1998), the content of each are incorporated herein by reference.

[0105] In some embodiments of the invention, a cell from a test sample may be used as a source of polynucleic acid for analysis, thereby obviating requirements for purified cultures. The polynucleic acid molecules may be either DNA, RNA or a combination of both. In some embodiments the polynucleic acid is DNA. Preferably, there is at least 100 micrograms of DNA available for analysis; however, considerably smaller amounts of DNA may be used in the methods of the invention. Nucleic acid amplification techniques, such as PCR, may be used to compensate when only low levels of polynucleic acid is available for analysis.

[0106] Based on sequence analysis of the target polynucleic acid, a multiplex PCR reaction may be employed with the use of several primers. Multiplex PCR is the term used when more than one pair of primers is used in a polymerase chain reaction. The goal of multiplex PCR is to amplify several segments of target polynucleic acid simultaneously and thereby to conserve template polynucleic acid, time and expense. Detailed protocols for multiplex PCR can be found in Molecular Cloning, A Laboratory Manual Sambrook and Russell Volume 2, third edition, Coldspring Harbour Laboratory Press. Since clinical samples often contain material that will interfere with PCR, a unique pre-processing method can be developed to obtain optimum amplification. The reaction conditions will be optimised for simultaneous amplification of all polynucleic acid regions of interest.

[0107] Other polynucleic acid amplification techniques include self-sustained sequence replication, Q beta replicase, ligation-based thermocycling approaches, real-time PCR, real-time strand displacement amplication (SDA), rolling-circle amplification (RCA) and multiple-displacement amplification (MDA).

[0108] Detailed protocols for amplification of polynucleic acid can be found in, among other places, Ausubel et al (Short Protocols in Molecular Biology, John Wiley & Sons (1995) volume 2, 5^th edition Chapter 15) and in Sambrook and Russell (Molecular Cloning, A Laboratory Manual, volume 2, third edition, Coldspring Harbour Laboratory Press). These publications also provide detailed guidance on how to design nucleic acid amplification primers.

[0109] In some embodiments of the present invention, the polynucleic acid is isolated and then amplified using PCR. Any amplification primers may be used to amplify tuf genes from target microorganisms as long as the primers specifically amplify the tuf gene variable region or a part thereof. Designing primers that are capable of amplifying a large number of tuf genes from different species of microorganism is well within the skill in the art. For example, tuf gene sequences for bacterial species are freely available from public databases such as GenBank® There are a number of databases capable of multiple sequence alignments using the tuf gene sequences obtained. Once aligned, persons skilled in the art can determine conserved regions within the various microorganisms by analysing the multiple sequence alignment data. Table 1 shows the multiple sequence alignment of a number of tuf genes from various microorganisms.

[0110] In some embodiments, the primers used to amplify tuf genes from a number of microorganisms are selected from the group consisting of SEQ ID NOs:394-396, or equivalents thereof, provided said equivalents specifically amplify the tuf variable region or a part thereof of different species of microorganism at the same time.

[0111] The ability to design equivalents of SEQ ID NOs:394-395 is well within the skill in the art. For example, it is well appreciated that the 3' end of any amplification primer is the most important end of any primer as this needs to properly anneal to a DNA template, for example, for primer extension to take place. Accordingly, the 3' ends of SEQ ID NOs:394-395 need to be maintained. However, it is further appreciated that the 5' ends of most primers can be altered, extended and/or shortened without adversely affecting the primers ability to amplify a product. Persons skilled in the art are capable of determining changes that can be made in primers by routine experimentation.

[0112] As mentioned above, a polynucleic acid comprising a tuf gene or tuf gene variable region may be used to identify a target micro-organism in a test sample. Reference to "micro-organism" encompasses any organism that can only be observed with the aid of a microscope and includes

TABLE-US-00014 TABLE 1 MPNE-HF2 -------------ATGGCAAAACAAAAGTTTGATAGATCAAAAGCTCACGTTAATATTGG 47 SEQ ID NO: 397 MPNE-M129 -------------ATGGCAAGAGAGAAATTTGACCGATCTAAACCCCACGTTAATGTAGG 47 SEQ ID NO: 398 LPNE-Paris GGGAGACTTTCCGATGGCGAAGGAAAAATTTGAACGTAAGAAGCCGCACGTAAACGTGGG 60 SEQ ID NO: 399 LPNE2-DAS ------------------------------------------------------------ LPNE-Philadelphial -------------ATGGCGAAGGAAAAATTTGAACGTAAGAAGCCGCACGTAAACGTGGG 47 SEQ ID NO: 400 LPNE-Lens -------------ATGGCGAAGGAAAAATTTGAACGTAAGAAGCCGCACGTAAACGTGGG 47 SEQ ID NO: 401 LLON-DAS ------------------------------------------------------------ FNUC-DAS ------------------------------------------------------------ CPNE-CWL029 -------------ATGTCAAAAGAAACTTTTCAACGTAATAAGCCCCATATCAATATTGG 47 SEQ ID NO: 402 EFAE-DAS ------------------------------------------------------------ EFAE-V583 -------------ATGGCAAAAGAAAAATTTGACCGTTCTAAATCCCATGTTAACATTGG 47 SEQ ID NO: 403 SAUR-Mu50 -------------ATGGCAAAAGAAAAATTCGATCGTTCTAAAGAACATGCCAATATCGG 47 SEQ ID NO: 404 SAUR-N315 -------------ATGGCAAAAGAAAAATTCGATCGTTCTAAAGAACATGCCAATATCGG 47 SEQ ID NO: 405 SAUR-MW2 -------------ATGGCAAAAGAAAAATTCGATCGTTCTAAAGAACATGCCAATATCGG 47 SEQ ID NO: 406 SAUR-MSSA476 -------------ATGGCAAAAGAAAAATTCGATCGTTCTAAAGAACATGCCAATATCGG 47 SEQ ID NO: 407 SAUR-MRSA252 -------------ATGGCAAAAGAAAAATTTGATCGTTCTAAAGAACATGCCAATATCGG 47 SEQ ID NO: 408 SEPI-12228 -------------ATGGCAAAAGAAAAATTTGATCGCTCAAAAGAACATGCCAATATTGG 47 SEQ ID NO: 409 SEPI-RP62A -------------ATGGCAAAAGAAAAATTTGATCGCTCAAAAGAACATGCCAATATTGG 47 SEQ ID NO: 410 SMIT-DAS ------------------------------------------------------------ SSAN-DAS ------------------------------------------------------------ SMIT-NCTC12261 -------------ATGGCAAAAGAAAAATACGATCGTAGTAAACCACACGTTAACATTGG 47 SEQ ID NO: 411 SPNE-R6 -------------ATGGCAAAAGAAAAATACGATCGTAGTAAACCACACGTTAACATTGG 47 SEQ ID NO: 412 SPYO-M1GAS -------------ATGGCAAAAGAAAAATACGATCGTAGTAAACCCCACGTTAACATTGG 47 SEQ ID NO: 413 SMUT-DAS ------------------------------------------------------------ SMUT-UA159 -------------ATGGCAAAAGAAAAATACGATCGTAGTAAACCACACGTTAACATTGG 47 SEQ ID NO: 414 HINF-RdKW20 -------------ATGTCTAAAGAAAAATTTGAACGTACAAAACCGCACGTAAACGTGGG 47 SEQ ID NO: 415 MCAT-DAS ------------------------------------------------------------ BPER-TohamaI -------------ATGGCAAAAGGCAAGTTTGAACGTACCAAGCCGCACGTGAACGTGGG 47 SEQ ID NO: 416 BPAR-12822 -------------ATGGCAAAAGGCAAGTTTGAACGTACCAAGCCGCACGTGAACGTGGG 47 SEQ ID NO: 417 BCEP2-DAS ------------------------------------------------------------ BPSE-1710b -------------ATGGCAAAAGAGAAGTTTGAGCGGACCAAGCCGCACGTGAACGTTGG 47 SEQ ID NO: 418 SMAL-DAS ------------------------------------------------------------ PAER-PA01 -------------GTGGCTAAGGAAAAATTCGAACGTAACAAACCGCACGTCAACGTCGG 47 SEQ ID NO: 419 KPNE-DAS ------------------------------------------------------------ MAVI-K10 -------------GTGGCGAAGGCGAAGTTCGAGCGGACGAAGCCGCACGTCAACATCGG 47 SEQ ID NO: 420 MAVI-paratub -------------GTGGCGAAGGCGAAGTTCGAGCGGACGAAGCCGCACGTCAACATCGG 47 SEQ ID NO: 421 MAISpig-DAS ------------------------------------------------------------ MKAN-DAS ------------------------------------------------------------ MTUB-H37Rv -------------GTGGCGAAGGCGAAGTTCCAGCGGACCAAGCCCCACGTCAACATCGG 47 SEQ ID NO: 422 MTUB-CDC1551 -------------GTGGCGAAGGCGAAGTTCCAGCGGACCAAGCCCCACGTCAACATCGG 47 SEQ ID NO: 423 MAVI-DAS ------------------------------------------------------------ CIDP-NCTC13129 -------------GTGGCAAAGGCTAAGTTCGAGCGTACCAAGCCGCACGTCAACATCGG 47 SEQ ID NO: 424 NMEN-MC58 -------------ATGGCTAAGGAAAAATTCGAACGTAGCAAACCGCACGTAAACGTTGG 47 SEQ ID NO: 425 NMEN-Z2491 -------------ATGGCTAAGGAAAAATTCGAACGTAGCAAACCGCACGTAAACGTTGG 47 SEQ ID NO: 426 NMEN-DAS ------------------------------------------------------------ MPNE-HF2 GACAATTGGACATATTGACCATGGTAAAACAACTTTAACAGCTGCAATCTGTACTTACCT 107 SEQ ID NO: 427 MPNE-M129 TACTATTGGCCACATTGACCACGGTAAAACAACTTTAACAGCAGCTATTTGTACTGTATT 107 SEQ ID NO: 428 LPNE-Paris CACGATTGGTCACGTAGACCATGGCAAGACGACATTGACAGCAGCTATTACAACGATTAT 120 SEQ ID NO: 429 LPNE2-DAS ------------------------------------------------------------ LPNE-Philadelphial CACGATTGGTCACGTAGACCATGGTAAGACGACATTGACAGCAGCTATTACAACGATTAT 107 SEQ ID NO: 430 LPNE-Lens CACGATTGGTCACGTAGACCATGGTAAGACGACATTGACAGCAGCTATTACAACGATTAT 107 SEQ ID NO: 431 LLON-DAS ------------------------------------------------------------ FNUC-DAS ------------------------------------------------------------ CPNE-CWL029 GACGATCGGGCACGTTGACCATGGTAAAACTACGCTAACAGCGGCAATTACACGCGCGCT 107 SEQ ID NO: 432 EFAE-DAS ------------------------------------------------------------ EFAE-V583 TACTATCGGACACGTTGACCATGGTAAAACTACATTAACAGCTGCAATTGCTACTGTATT 107 SEQ ID NO: 433 SAUR-Mu50 TACTATCGGTCACGTTGACCATGGTAAAACAACATTAACAGCAGCAATCGCTACTGTATT 107 SEQ ID NO: 434 SAUR-N315 TACTATCGGTCACGTTGACCATGGTAAAACAACATTAACAGCAGCAATCGCTACTGTATT 107 SEQ ID NO: 435 SAUR-MW2 TACTATCGGTCACGTTGACCATGGTAAAACAACATTAACAGCAGCAATCGCTACTGTATT 107 SEQ ID NO: 436 SAUR-MSSA476 TACTATCGGTCACGTTGACCATGGTAAAACAACATTAACAGCAGCAATCGCTACTGTATT 107 SEQ ID NO: 437 SAUR-MRSA252 TACTATCGGTCACGTTGACCATGGTAAAACAACATTAACAGCAGCAATCGCTACTGTATT 107 SEQ ID NO: 438 SEPI-12228 TACTATCGGTCACGTTGACCATGGTAAAACAACTTTAACAGCTGCTATCGCAACTGTATT 107 SEQ ID NO: 439 SEPI-RP62A TACTATCGGTCACGTTGACCATGGTAAAACAACTTTAACAGCTGCTATCGCAACTGTATT 107 SEQ ID NO: 440 SMIT-DAS ------------------------------------------------------------ SSAN-DAS -----------------------------------------------------CTGTATT 7 SEQ ID NO: 441 SMIT-NCTC12261 TACTATCGGACACGTTGACCACGGTAAAACTACTTTGACAGCAGCTATCACAACTGTTTT 107 SEQ ID NO: 442 SPNE-R6 TACTATCGGACACGTTGACCACGGTAAAACTACCCTAACTGCAGCTATCACAACTGTTTT 107 SEQ ID NO: 443 SPYO-M1GAS TACAATCGGACACGTTGACCATGGTAAAACTACTTTAACAGCTGCAATCACAACTGTATT 107 SEQ ID NO: 444 SMUT-DAS -----------------------------------------------------CTGTACT 7 SEQ ID NO: 445 SMUT-UA159 TACTATCGGACACGTTGACCATGGTAAAACTACCTTAACTGCAGCTATCACAACTGTACT 107 SEQ ID NO: 446 HINF-RdKW20 TACAATCGGCCACGTTGACCACGGTAAAACAACTTTAACAGCAGCAATCACAACCGTATT 107 SEQ ID NO: 447 MCAT-DAS ------------------------------------------------------------ BPER-TohamaI TACGATTGGTCACGTTGACCACGGCAAAACGACGTTGACGGCGGCGATCACGACGGTGCT 107 SEQ ID NO: 448 BPAR-12822 TACGATTGGTCACGTTGACCACGGCAAAACGACGTTGACGGCGGCGATCACGACGGTGCT 107 SEQ ID NO: 449 BCEP2-DAS ------------------------------------------------------------ BPSE-1710b TACGATTGGTCACGTTGACCACGGCAAGACGACGCTGACGGCAGCGATCGCGACGGTGCT 107 SEQ ID NO: 450 SMAL-DAS -----------------------------------------------TGACAAGATCGGT 13 SEQ ID NO: 451 PAER-PA01 CACCATCGGTCACGTTGACCATGGCAAGACCACTCTGACCGCTGCACTGACCAAGGTCTG 107 SEQ ID NO: 452 KPNE-DAS ------------------------------------------------------------ MAVI-K10 GACCATCGGTCACGTTGACCACGGCAAGACCACGCTGACCGCGGCTATCACCAAGGTTCT 107 SEQ ID NO: 453 MAVI-paratub GACCATCGGTCACGTTGACCACGGCAAGACCACGCTGACCGCGGCTATCACCAAGGTTCT 107 SEQ ID NO: 454 MAISpig-DAS ----------------------------------------------------------CT 2 SEQ ID NO: 455 MKAN-DAS ----------------------------------------------------AAGGTCCT 8 SEQ ID NO: 456 MTUB-H37Rv GACCATCGGTCACGTTGACCACGGCAAGACCACCCTGACCGCGGCTATCACCAAGGTCCT 107 SEQ ID NO: 457 MTUB-CDC1551 GACCATCGGTCACGTTGACCACGGCAAGACCACCCTGACCGCGGCTATCACCAAGGTCCT 107 SEQ ID NO: 458 MAVI-DAS ------------------------------------------------------------ NCTC13129 CACCATCGGTCACGTTGACCACGGTAAGACCACCACCACCGCTGCTATCACCAAGGTTTT 107 SEQ ID NO: 459 NMEN-MC58 CACCATCGGTCACGTTGACCATGGTAAAACCACCCTGACTGCCGCTTTGACTACTATTTT 107 SEQ ID NO: 460 NMEN-Z2491 CACCATCGGTCACGTTGACCATGGTAAAACCACCCTGACTGCCGCTTTGACTACTATTTT 107 SEQ ID NO: 461

NMEN-DAS ------------------------------------------------------------ MPNE-HF2 TGCAAAAAAAGGTGGTGCTAAAG---------CAATGAAATATGATGAAATTGATAAAGC 158 SEQ ID NO: 462 MPNE-M129 AGCAAAAGAAGGTAAATCAGCTG---------CTACTCGTTACGACCAAATCGATAAGGC 158 SEQ ID NO: 463 LPNE-Paris GGCGAAGAAATATGGTGGTACAG---------CGAAGGCGTACGATCAAATTGATGCTGC 171 SEQ ID NO: 464 LPNE2-DAS ----------TATGGTGGTACAG---------CGAAGGCGTACGATCAAATTGATGCTGC 41 SEQ ID NO: 465 LPNE-Philadelphial GGCGAAGAAATATGGTGGTACAG---------CGAAGGCGTACGATCAAATTGATGCTGC 158 SEQ ID NO: 466 LPNE-Lens GGCGAAGAAATATGGTGGTACAG---------CGAAGGCGTACGATCAAATTGATGCTGC 158 SEQ ID NO: 467 LLON-DAS ---------GTTTGGTGGTATAG---------CAAAAGCATACGATCAGATCGATGCTGC 42 SEQ ID NO: 468 FNUC-DAS ---------------AGCTAAAA---------AAGTAGATTTTGACCAAATTGATGCTGC 36 SEQ ID NO: 469 CPNE-CWL029 ATCAGGGGATGGATTGGCCTCTT---------TCCGTGACTATAGTTCAATTGACAATAC 158 SEQ ID NO: 470 EFAE-DAS ----------------GGGAAAG---------CACAAAGCTACGATTCTATCGATAACGC 35 SEQ ID NO: 471 EFAE-V583 ATCAAAACACGGTGGCGGGGAAG---------CACAAAGCTACGATTCTATCGATAACGC 158 SEQ ID NO: 472 SAUR-Mu50 AGCAAAAAATGGTGACTCAGTTG---------CACAATCATATGACATGATTGACAACGC 158 SEQ ID NO: 473 SAUR-N315 AGCAAAAAATGGTGACTCAGTTG---------CACAATCATATGACATGATTGACAACGC 158 SEQ ID NO: 474 SAUR-MW2 AGCAAAAAATGGTGACTCAGTTG---------CACAATCATATGACATGATTGACAACGC 158 SEQ ID NO: 475 SAUR-MSSA476 AGCAAAAAATGGTGACTCAGTTG---------CACAATCATATGACATGATTGACAACGC 158 SEQ ID NO: 476 SAUR-MRSA252 AGCAAAAAATGGTGACTCAGTTG---------CACAATCATACGACATGATTGACAACGC 158 SEQ ID NO: 477 SEPI-12228 AGCTAAAAATGGTGACACTGTTG---------CACAATCATACGATATGATTGACAACGC 158 SEQ ID NO: 478 SEPI-RP62A AGCTAAAAATGGTGACACTGTTG---------CACAATCATACGATATGATTGACAACGC 158 SEQ ID NO: 479 SMIT-DAS ----------------------------------AAAGACTATGCGTCTATCGATGCTGC 26 SEQ ID NO: 480 SSAN-DAS GGCACGTCGCTTGCCTTCAGCAGTTAACCAACCTAAAGACTATGCGTCTATCGATGCTGC 67 SEQ ID NO: 481 SMIT-NCTC12261 GGCACGTCGCTTGCCTTCAGCTGTTAACCAACCTAAAGACTATGCGTCTATCGATGCTGC 167 SEQ ID NO: 482 SPNE-R6 GGCACGTCGCTTGCCTTCATCAGTTAACCAACCTAAAGACTATGCGTCTATCGATGCTGC 167 SEQ ID NO: 483 SPYO-M1GAS GGCACGTCGCTTGCCTTCATCAGTTAACCAACCAAAAGATTACGCTTCTATCGATGCTGC 167 SEQ ID NO: 484 SMUT-DAS GGCACGTCGTCTTCCAAGTGCAGTAAACCAACCAAAAGATTATTCATCTATTGATGCTGC 67 SEQ ID NO: 485 SMUT-UA159 GGCACGTCGTCTTCCAAGTGCAGTAAACCAACCAAAAGATTATTCATCTATTGATGCTGC 167 SEQ ID NO: 486 HINF-RdKW20 AGCAAAACACTACGGTGGTGCAG---------CGCGTGCATTTGACCAAATTGATAACGC 158 SEQ ID NO: 487 MCAT-DAS ---------------------------------------------------CGACTCTGC 9 SEQ ID NO: 488 BPER-TohamaI GTCGAACAAGTTCGGCGG---------CGAGGCTCGCGGCTACGACCAGATTGACGCGGC 158 SEQ ID NO: 489 BPAR-12822 GTCGAACAAGTTCGGCGG---------CGAGGCTCGCGGCTACGACCAGATTGACGCGGC 158 SEQ ID NO: 490 BCEP2-DAS ---------GTTCGGCGG---------CGAAGCGAAGAAGTACGACGAAATCGACGCGGC 42 SEQ ID NO: 491 BPSE-1710b GTCGGCGAAGTTCGGCGG---------CGAAGCGAAGAAGTACGACGAAATCGACGCGGC 158 SEQ ID NO: 492 SMAL-DAS GCCGAGCGC-TTCGGTGG---------CGAGTTCAAGGACTACTCCTCGATCGACGCCGC 63 SEQ ID NO: 493 PAER-PA01 CTCCGATACCTGGGGTGG---------TTCCGCTCGTGCTTTCGATCAGATCGACAACGC 158 SEQ ID NO: 494 KPNE-DAS ---------CTACGGTGG---------TTCCGCTCGCGCATTCGACCAGATCGATAACGC 42 SEQ ID NO: 495 MAVI-K10 GCACGACAAGTACCCGGACCTGA---ACGAGTCCCGCGCGTTCGACCAGATCGACAACGC 164 SEQ ID NO: 496 MAVI-paratub GCACGACAAGTACCCGGACCTGA---ACGAGTCCCGCGCGTTCGACCAGATCGACAACGC 164 SEQ ID NO: 497 MAISpig-DAS GCACGACAAGTACCCGGACCTGA---ACGAGTCCCGCGCGTTCGACCAGATCGACAACGC 59 SEQ ID NO: 498 MKAN-DAS GCATGACAAGTTCCCGGACCTGA---ACGAGTCGAAGGCGTTCGACCAGATCGACAACGC 65 SEQ ID NO: 499 MTUB-H37Rv GCACGACAAATTCCCCGATCTGA---ACGAGACGAAGGCATTCGACCAGATCGACAACGC 164 SEQ ID NO: 500 MTUB-CDC1551 GCACGACAAATTCCCCGATCTGA---ACGAGACGAAGGCATTCGACCAGATCGACAACGC 164 SEQ ID NO: 501 MAVI-DAS -------------------------------------------------------AACGC 5 SEQ ID NO: 502 NCTC13129 GGCAGACGCTTACCCAGAGCTGA---ACGAAGCTTTCGCTTTCGATGCCATCGATAAGGC 164 SEQ ID NO: 503 NMEN-MC58 GGCTAAAAAATTCGGCGG---------TGCTGCAAAAGCTTACGACCAAATCGACAACGC 158 SEQ ID NO: 504 NMEN-Z2491 GGCTAAAAAATTCGGCGG---------TGCTGCAAAAGCTTACGACCAAATCGACAACGC 158 SEQ ID NO: 505 NMEN-DAS ------------------------------------------------------------ MPNE-HF2 ACCTGAAGAAAAAGCTAGAGGTATTACTATTAATACTGCTCACGTTGAATATGAAACAGA 218 SEQ ID NO: 506 MPNE-M129 TCCGGAAGAAAAAGCACGGGGAATTACGATTAACTCCGCTCACGTGGAGTACTCCTCTGA 218 SEQ ID NO: 507 LPNE-Paris GCCAGAAGAAAGAGAGCGTGGTATTACTATTTCTACAGCACACGTTGAGTACGAATCAGC 231 SEQ ID NO: 508 LPNE2-DAS GCCAGAAGAAAGAGAGCGTGGGATTACTATTTCTACAGCACATGTTGAATACGAATCAGC 101 SEQ ID NO: 509 LPNE-Philadelphial GCCAGAAGAAAGAGAGCGTGGGATTACTATTTCTACAGCACATGTTGAATACGAATCAGC 218 SEQ ID NO: 510 LPNE-Lens GCCAGAAGAAAGAGAGCGTGGTATTACTATATCTACAGCCCATGTTGAATACGAATCAGC 218 SEQ ID NO: 511 LLON-DAS ACCAGAAGAAAGAGAGCGAGGCATCACAATCTCAACAGCGCACGTTGAATACGAATCAGC 102 SEQ ID NO: 512 FNUC-DAS TCCAGAAGAAAAAGAAAGAGGAATTACTATTAATACAGCTCATATTGAATATGAAACAGC 96 SEQ ID NO: 513 CPNE-CWL029 TCCAGAAGAAAAGGCTCGTGGAATTACTATCAACGCTTCTCACGTTGAATACGAAACCCC 218 SEQ ID NO: 514 EFAE-DAS TCCAGAAGAAAAAGAACGTGGAATCACAATCAACACTTCTCATATCGAATATGAAACTGA 95 SEQ ID NO: 515 EFAE-V583 TCCAGAAGAAAAAGAACGTGGAATCACAATCAACACTTCTCATATCGAATATGAAACTGA 218 SEQ ID NO: 516 SAUR-Mu50 TCCAGAAGAAAAAGAACGTGGTATCACAATCAATACTTCTCACATTGAGTACCAAACTGA 218 SEQ ID NO: 517 SAUR-N315 TCCAGAAGAAAAAGAACGTGGTATCACAATCAATACTTCTCACATTGAGTACCAAACTGA 218 SEQ ID NO: 518 SAUR-MW2 TCCAGAAGAAAAAGAACGTGGTATCACAATCAATACTTCTCACATTGAGTACCAAACTGA 218 SEQ ID NO: 519 SAUR-MSSA476 TCCAGAAGAAAAAGAACGTGGTATCACAATCAATACTTCTCACATTGAGTACCAAACTGA 218 SEQ ID NO: 520 SAUR-MRSA252 TCCAGAAGAAAAAGAACGTGGTATCACAATCAATACTTCACACATTGAGTACCAAACTGA 218 SEQ ID NO: 521 SEPI-12228 TCCAGAAGAAAAAGAACGTGGTATTACAATCAATACTGCACATATCGAATACCAAACTGA 218 SEQ ID NO: 522 SEPI-RP62A TCCAGAAGAAAAAGAACGTGGTATTACAATCAATACTGCACATATCGAATACCAAACTGA 218 SEQ ID NO: 523 SMIT-DAS TCCAGAAGAACGCGAACGCGGTATCACTATCAACACTGCGCACGTTGAGTACGAAACTGA 86 SEQ ID NO: 524 SSAN-DAS TCCAGAAGAACGCGAACGCGGAATCACTATCAACACTGCGCACGTTGAGTATGAAACTGC 127 SEQ ID NO: 525 SMIT-NCTC12261 TCCAGAAGAACGCGAACGTGGTATCACAATCAACACTGCGCACGTTGAGTACGAAACTGA 227 SEQ ID NO: 526 SPNE-R6 TCCAGAAGAACGCGAACGCGGTATCACTATCAACACTGCGCACGTTGAGTACGAAACTGA 227 SEQ ID NO: 527 SPYO-M1GAS TCCAGAAGAACGCGAACGCGGAATCACTATCAACACTGCACACGTTGAGTACGAAACTGC 227 SEQ ID NO: 528 SMUT-DAS TCCTGAAGAACGCGAACGCGGTATCACTATCAATACTGCGCACGTTGAGTATGAAACTGA 127 SEQ ID NO: 529 SMUT-UA159 TCCTGAAGAACGCGAACGCGGTATCACTATCAATACTGCGCACGTTGAGTATGAAACTGA 227 SEQ ID NO: 530 HINF-RdKW20 GCCAGAAGAAAAAGCGCGTGGTATTACCATCAACACTTCACACGTTGAATACGATACACC 218 SEQ ID NO: 531 MCAT-DAS ACCTGAAGAAAAAGCACGTGGTATTACTATTAACACATCTCACATCGAGTATGACACAGA 69 SEQ ID NO: 532 BPER-TohamaI GCCGGAAGAGAAGGCGCGTGGGATCACGATCAACACCTCGCACGTTGAGTACGAGACGGA 218 SEQ ID NO: 533 BPAR-12822 GCCGGAAGAGAAGGCGCGTGGGATCACGATCAACACCTCGCACGTTGAGTACGAGACGGA 218 SEQ ID NO: 534 BCEP2-DAS GCCGGAAGAAAAGGCACGCGGCATCACGATCAACACCGCGCACATCGAGTACGAAACGGC 102 SEQ ID NO: 535 BPSE-1710b GCCGGAAGAAAAGGCGCGCGGCATCACGATCAACACCGCGCACATCGAGTACGAAACGGC 218 SEQ ID NO: 536 SMAL-DAS GCCGGAAGAAAAGGCTCGTGGTATCACGATCTCGACCGCGCACGTCGAATACGAATCCCC 123 SEQ ID NO: 537 PAER-PA01 GCCGGAAGAAAAGGCCCGCGGTATCACCATCAACACCTCGCACGTTGAATACGATTCCGC 218 SEQ ID NO: 538 KPNE-DAS GCCGGAAGAAAAAGCTCGTGGTATCACCATCAACACCTCTCACGTTGAATATGACACCCC 102 SEQ ID NO: 539 MAVI-K10 GCCCGAGGAGCGTCAGCGCGGTATCACCATCAACATCTCCCACGTGGAGTACCAGACCGA 224 SEQ ID NO: 540 MAVI-paratub GCCCGAGGAGCGTCAGCGCGGTATCACCATCAACATCTCCCACGTGGAGTACCAGACCGA 224 SEQ ID NO: 541 MAISpig-DAS TCCCGAGGAGCGTCAGCGCGGTATCACGATCAACATCTCCCACGTGGAGTACCAGACCGA 119 SEQ ID NO: 542

MKAN-DAS TCCTGAGGAGCGCCAGCGCGGTATCACGATCAACATCGCGCACGTGGAGTACCAGACCGA 125 SEQ ID NO: 543 MTUB-H37Rv CCCCGAGGAGCGTCAGCGCGGTATCACCATCAACATCGCGCACGTGGAGTACCAGACCGA 224 SEQ ID NO: 544 MTUB-CDC1551 CCCCGAGGAGCGTCAGCGCGGTATCACCATCAACATCGCGCACGTGGAGTACCAGACCGA 224 SEQ ID NO: 545 MAVI-DAS GCCTGAAGAGCGTCAGCGCGGTATCACCATCAACATCTCGCATGTTGAGTACCAGACCGA 65 SEQ ID NO: 546 CIDP-NCTC13129 ACCGGAAGAGAAAGAGCGTGGTATTACCATCAACATCTCCCACGTGGAGTACCAGACCGA 224 SEQ ID NO: 547 NMEN-MC58 ACCCGAAGAAAAAGCACGCGGTATTACCATTAACACCTCGCACGTGGAATACGAAACCGA 218 SEQ ID NO: 548 NMEN-Z2491 ACCCGAAGAAAAAGCACGCGGTATTACCATTAACACCTCGCACGTGGAATACGAAACCGA 218 SEQ ID NO: 549 NMEN-DAS -CCCGAAGAAAAAGCACGCGGTATTACCATTAACACCTCGCACGTGGAATACGAAACCGA 59 SEQ ID NO: 550 MPNE-HF2 AAACAGACACTATGCTCACGTAGACTGTCCAGGTCACGCTGACTACGTTAAGAACATGAT 278 SEQ ID NO: 551 MPNE-M129 CAAGCGTCACTATGCTCACGTTGACTGTCCAGGACACGCTGACTACATTAAGAACATGAT 278 SEQ ID NO: 552 LPNE-Paris GAGCAGACATTATGCGCACGTAGACTGCCCGGGGCATGCTGACTATGTTAAGAACATGAT 291 SEQ ID NO: 553 LPNE2-DAS GAGCAGACATTATGCGCACGTAGACTGCCCGGGGCATGCTGACTATGTTAAGAACATGAT 161 SEQ ID NO: 554 LPNE-Philadelphial GAGCAGACATTATGCACACGTAGACTGCCCGGGACATGCTGACTATGTTAAGAACATGAT 278 SEQ ID NO: 555 LPNE-Lens GAGCAGACATTATGCACACGTAGACTGCCCGGGACATGCTGACTATGTTAAGAACATGAT 278 SEQ ID NO: 556 LLON-DAS GAACAGACACTATGCGCATGTTGATTGCCCAGGACATGCTGACTATGTGAAGAACATGAT 162 SEQ ID NO: 557 FNUC-DAS AAATAGACACTATGCTCACGTTGACTGTCCAGGGCATGCTGACTATGTTAAAAATATGAT 156 SEQ ID NO: 558 CPNE-CWL029 AAATCGTCACTACGCTCACGTAGACTGCCCTGGTCACGCTGACTATGTTAAAAATATGAT 278 SEQ ID NO: 559 EFAE-DAS AACTCGTCACTATGCACACGTTGACTGCCCAGGACACGCGGACTACGTTAAAAACATGAT 155 SEQ ID NO: 560 EFAE-V583 AACTCGTCACTATGCACACGTTGACTGCCCAGGACATGCGGACTACGTTAAAAACATGAT 278 SEQ ID NO: 561 SAUR-Mu50 CAAACGTCACTACGCTCACGTTGACTGCCCAGGACACGCTGACTACGTTAAAAACATGAT 278 SEQ ID NO: 562 SAUR-N315 CAAACGTCACTACGCTCACGTTGACTGCCCAGGACACGCTGACTACGTTAAAAACATGAT 278 SEQ ID NO: 563 SAUR-MW2 CAAACGTCACTACGCTCACGTTGACTGCCCAGGACACGCTGACTACGTTAAAAACATGAT 278 SEQ ID NO: 564 SAUR-MSSA476 CAAACGTCACTACGCTCACGTTGACTGCCCAGGACACGCTGACTACGTTAAAAACATGAT 278 SEQ ID NO: 565 SAUR-MRSA252 CAAACGTCACTACGCTCACGTTGACTGCCCAGGACACGCTGACTATGTTAAAAACATGAT 278 SEQ ID NO: 566 SEPI-12228 CAAACGTCACTATGCTCACGTTGACTGCCCAGGACACGCTGACTATGTTAAAAACATGAT 278 SEQ ID NO: 567 SEPI-RP62A CAAACGTCACTATGCTCACGTTGACTGCCCAGGACACGCTGACTATGTTAAAAACATGAT 278 SEQ ID NO: 568 SMIT-DAS AAAACGTCACTACGCTCACATCGACGCTCCAGGACACGCGGACTACGTTAAAAACATGAT 146 SEQ ID NO: 569 SSAN-DAS TAAGCGTCACTACGCTCACATCGACGCTCCAGGACACGCGGACTACGTTAAAAACATGAT 187 SEQ ID NO: 570 SMIT-NCTC12261 AAAACGTCACTACGCTCACATCGACGCTCCAGGACACGCGGACTATGTTAAAAACATGAT 287 SEQ ID NO: 571 SPNE-R6 AAAACGTCACTACGCTCACATCGACGCTCCAGGACACGCGGACTACGTTAAAAACATGAT 287 SEQ ID NO: 572 SPYO-M1GAS AACTCGTCACTATGCGCACATCGACGCTCCAGGACACGCGGACTACGTTAAAAACATGAT 287 SEQ ID NO: 573 SMUT-DAS AAAACGTCACTATGCTCACATTGACGCTCCAGGACACGCGGACTATGTTAAAAACATGAT 187 SEQ ID NO: 574 SMUT-UA159 AAAACGTCACTATGCTCACATTGATGCTCCAGGACACGCGGACTATGTTAAAAACATGAT 287 SEQ ID NO: 575 HINF-RdKW20 GACTCGCCACTACGCACACGTAGACTGTCCGGGACACGCCGACTATGTTAAAAATATGAT 278 SEQ ID NO: 576 MCAT-DAS AGCTCGTCACTACGCACATGTAGACTGCCCAGGCCACGCTGACTATGTTAAAAACATGAT 129 SEQ ID NO: 577 BPER-TohamaI GACGCGTCACTACGCGCACGTTGATTGCCCGGGTCACGCTGACTACGTGAAGAACATGAT 278 SEQ ID NO: 578 BPAR-12822 GACGCGTCACTACGCGCACGTTGATTGCCCGGGTCACGCTGACTACGTGAAGAACATGAT 278 SEQ ID NO: 579 BCEP2-DAS GAACCGCCACTACGCGCACGTCGACTGCCCGGGCCACGCCGACTACGTGAAGAACATGAT 162 SEQ ID NO: 580 BPSE-1710b GAACCGCCACTACGCACACGTGGACTGCCCGGGCCACGCCGACTACGTGAAGAACATGAT 278 SEQ ID NO: 581 SMAL-DAS GATCCGTCACTACGCCCACGTTGACTGCCCGGGCCACGCTGACTACGTCAAGAACATGAT 183 SEQ ID NO: 582 PAER-PA01 TGTTCGTCACTACGCCCACGTTGACTGCCCCGGTCACGCCGACTACGTGAAGAACATGAT 278 SEQ ID NO: 583 KPNE-DAS GACTCGCCACTACGCGCACGTAGACTGCCCGGGCCACGCCGACTATGTTAAAAACATGAT 162 SEQ ID NO: 584 MAVI-K10 CAAGCGGCACTACGCTCACGTCGACGCCCCGGGTCACGCCGACTACATCAAGAACATGAT 284 SEQ ID NO: 585 MAVI-paratub CAAGCGGCACTACGCTCACGTCGACGCCCCGGGTCACGCCGACTACATCAAGAACATGAT 284 SEQ ID NO: 586 MAISpig-DAS CAAGCGGCACTATGCCCACGTCGACGCCCCGGGTCACGCCGACTACATCAAGAACATGAT 179 SEQ ID NO: 587 MKAN-DAS GAAGCGGCACTATGCACACGTCGACGCGCCGGGCCACGCCGACTACATCAAGAACATGAT 185 SEQ ID NO: 588 MTUB-H37Rv CAAGCGGCACTACGCACACGTCGACGCCCCTGGCCACGCCGACTACATCAAGAACATGAT 284 SEQ ID NO: 589 MTUB-CDC1551 CAAGCGGCACTACGCACACGTCGACGCCCCTGGCCACGCCGACTACATCAAGAACATGAT 284 SEQ ID NO: 590 MAVI-DAS GAAGCGCCACTACGCACACGTGGACGCCCCCGGCCACGCGGACTACATCAAGAACATGAT 125 SEQ ID NO: 591 CIDP-NCTC13129 GAAGCGCCACTACGCACACGTTGACGCTCCAGGTCACGCTGACTACATCAAGAACATGAT 284 SEQ ID NO: 592 NMEN-MC58 AACCCGCCACTACGCACACGTAGACTGCCCGGGGCACGCCGACTACGTTAAAAACATGAT 278 SEQ ID NO: 593 NMEN-Z2491 AACCCGCCACTACGCACACGTAGACTGTCCGGGGCACGCCGACTACGTTAAAAACATGAT 278 SEQ ID NO: 594 NMEN-DAS AACCCGCCACTACGCACACGTAGACTGCCCGGGGCACGCCGACTACGTTAAAAACATGAT 119 SEQ ID NO: 595 MPNE-HF2 TACTGGTGCTGCTCAAATGGATGGTGCAATCTTAGTAGTTGCTGCATCTGATGGACCAAT 338 SEQ ID NO: 596 MPNE-M129 TACTGGTGCTGCACAAATGGATGGTGCCATTCTAGTAGTTTCAGCAACTGACAGTGTTAT 338 SEQ ID NO: 597 LPNE-Paris TACTGGTGCTGCGCAAATGGACGGAGCGATACTGGTTGTATCAGCAGCTGATGGTCCTAT 351 SEQ ID NO: 598 LPNE2-DAS TACTGGTGCTGCGCAAATGGACGGAGCGATACTGGTTGTATCAGCAGCTGATGGTCCTAT 221 SEQ ID NO: 599 LPNE-Philadelphial TACTGGTGCTGCGCAAATGGACGGAGCGATACTGGTTGTATCAGCAGCTGATGGTCCTAT 338 SEQ ID NO: 600 LPNE-Lens TACTGGTGCTGCGCAAATGGACGGAGCGATACTGGTTGTATCAGCAGCTGATGGTCCTAT 338 SEQ ID NO: 601 LLON-DAS TACAGGTGCTGCACAAATGGACGGAGCGATACTTGTAGTATCTGCAGCAGATGGTCCTAT 222 SEQ ID NO: 602 FNUC-DAS AACTGGTGCTGCACAAATGGATGGAGCTATACTTGTTGTATCAGCTGCTGATGGTCCTAT 216 SEQ ID NO: 603 CPNE-CWL029 TACAGGCGCCGCTCAAATGGACGGAGCTATCCTAGTCGTTTCAGCTACAGACGGAGCTAT 338 SEQ ID NO: 604 EFAE-DAS CACTGGTGCTGCTCAAATGGACGGAGCTATCTTAGTAGTTTCTGCTGCTGATGGTCCTAT 215 SEQ ID NO: 605 EFAE-V583 CACTGGTGCTGCTCAAATGGACGGAGCTATCTTAGTAGTTTCTGCTGCTGATGGTCCTAT 338 SEQ ID NO: 606 SAUR-Mu50 CACTGGTGCTGCTCAAATGGACGGCGGTATCTTAGTAGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 607 SAUR-N315 CACTGGTGCTGCTCAAATGGACGGCGGTATCTTAGTAGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 608 SAUR-MW2 CACTGGTGCTGCTCAAATGGACGGCGGTATCTTAGTAGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 609 SAUR-MSSA476 CACTGGTGCTGCTCAAATGGACGGCGGTATCTTAGTAGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 610 SAUR-MRSA252 CACTGGTGCTGCTCAAATGGACGGTGGTATCTTAGTAGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 611 SEPI-12228 CACTGGTGCAGCTCAAATGGACGGCGGTATCTTAGTTGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 612 SEPI-RP62A CACTGGTGCAGCTCAAATGGACGGCGGTATCTTAGTTGTATCTGCTGCTGACGGTCCAAT 338 SEQ ID NO: 613 SMIT-DAS CACTGGTGCCGCTCAAATGGACGGAGCTATCCTTGTAGTAGCTTCAACTGACGGACCAAT 206 SEQ ID NO: 614 SSAN-DAS CACTGGTGCCGCTCAAATGGACGGAGCTATCCTTGTAGTAGCTTCAACTGACGGACCAAT 247 SEQ ID NO: 615 SMIT-NCTC12261 CACTGGTGCCGCTCAAATGGACGGAGCTATCCTTGTAGTAGCTTCAACTGACGGACCAAT 347 SEQ ID NO: 616 SPNE-R6 CACTGGTGCTGCTCAAATGGACGGAGCTATCCTTGTAGTAGCTTCAACTGACGGACCAAT 347 SEQ ID NO: 617 SPYO-M1GAS CACTGGTGCCGCTCAAATGGACGGAGCTATCCTTGTAGTTGCTTCAACTGATGGACCAAT 347 SEQ ID NO: 618 SMUT-DAS TACTGGTGCTGCCCAAATGGATGGTGCTATCCTTGTAGTAGCTTCAACTGATGGTCCAAT 247 SEQ ID NO: 619 SMUT-UA159 CACTGGTGCTGCCCAAATGGATGGTGCTATCCTTGTAGTAGCTTCAACTGATGGACCAAT 347 SEQ ID NO: 620 HINF-RdKW20 TACTGGTGCGGCACAAATGGATGGTGCTATTTTAGTAGTAGCAGCAACAGATGGTCCTAT 338 SEQ ID NO: 621 MCAT-DAS CACAGGTGCTGCACAGATGGACGGCGCAATCTTGGTTGTTTCTGCAACTGACGGCCCAAT 189 SEQ ID NO: 622 BPER-TohamaI CACGGGTGCTGCGCAGATGGACGGCGCGATCCTGGTGGTGTCGGCCGCAGACGGCCCGAT 338 SEQ ID NO: 623 BPAR-12822 CACGGGTGCTGCGCAGATGGACGGCGCGATCCTGGTGGTGTCGGCCGCAGACGGCCCGAT 338 SEQ ID NO: 624

BCEP2-DAS CACGGGTGCAGCGCAGATGGACGGCGCAATCCTGGTGTGCTCGGCCGCAGACGGCCCGAT 222 SEQ ID NO: 625 BPSE-1710b CACGGGCGCGGCGCAGATGGACGGCGCGATCCTGGTGTGCTCGGCCGCTGACGGCCCGAT 338 SEQ ID NO: 626 SMAL-DAS CACCGGTGCCGCCCAGATGGACGGCGCGATCCTGGTGTGCTCGGCCGCTGACGGCCCGAT 243 SEQ ID NO: 627 PAER-PA01 CACCGGTGCTGCCCAGATGGACGGCGCGATCCTGGTTTGCTCGGCTGCCGACGGCCCCAT 338 SEQ ID NO: 628 KPNE-DAS CACCGGTGCTGCGCAGATGGACGGCGCGATCCTGGTTGTTGCTGCGACTGACGGCCCGAT 222 SEQ ID NO: 629 MAVI-K10 CACCGGCGCCGCCCAGATGGACGGCGCGATCCTGGTGGTCGCCGCCACCGACGGCCCGAT 344 SEQ ID NO: 630 MAVI-paratub CACCGGCGCCGCCCAGATGGACGGCGCGATCCTGGTGGTCGCCGCCACCGACGGCCCGAT 344 SEQ ID NO: 631 MAISpig-DAS CACCGGTGCGGCCCAGATGGACGGCGCGATCCTGGTGGTTGCCGCCACCGACGGCCCGAT 239 SEQ ID NO: 632 MKAN-DAS CACCGGCGCCGCCCAGATGGACGGCGCGATCCTGGTGGTCGCCGCCACGGACGGCCCGAT 245 SEQ ID NO: 633 MTUB-H37Rv CACCGGCGCCGCGCAGATGGACGGTGCGATCCTGGTGGTCGCCGCCACCGACGGCCCGAT 344 SEQ ID NO: 634 MTUB-CDC1551 CACCGGCGCCGCGCAGATGGACGGTGCGATCCTGGTGGTCGCCGCCACCGACGGCCCGAT 344 SEQ ID NO: 635 MAVI-DAS CACCGGTGCCGCCCAGATGGACGGCGCGATCCTGGTGGTCGCCGCGACCGACGGCCCGAT 185 SEQ ID NO: 636 NCTC13129 CACCGGTGCTGCTCAGATGGACGGCGCAATCCTCGTTGTTGCTGCCACCGACGGCCCAAT 344 SEQ ID NO: 637 NMEN-MC58 TACCGGCGCCGCACAAATGGACGGTGCAATCCTGGTATGTTCCGCAGCCGACGGCCCTAT 338 SEQ ID NO: 638 NMEN-Z2491 TACCGGCGCAGCACAAATGGACGGTGCAATCCTGGTATGTTCCGCAGCCGACGGCCCTAT 338 SEQ ID NO: 639 NMEN-DAS TACCGGTGCCGCACAAATGGACGGTGCAATCCTGGTATGTTCCGCAGCCGACGGCCCTAT 179 SEQ ID NO: 640 MPNE-HF2 GCCACAAACAAGAGAACACATCTTATTAGCTAGACAAGTTGGTGTTCCTAAAATGGTAGT 398 SEQ ID NO: 641 MPNE-M129 GCCCCAAACCCGTGAACACATTTTGTTGGCCCGCCAAGTGGGTGTGCCACGCATGGTAGT 398 SEQ ID NO: 642 LPNE-Paris GCCACAAACGAGGGAACACATTCTATTGTCTCGCCAGGTAGGTGTTCCATATATTGTTGT 411 SEQ ID NO: 643 LPNE2-DAS GCCACAAACGAGGGAACACATTCTATTGTCTCGCCAGGTAGGTGTTCCATATATTGTTGT 281 SEQ ID NO: 644 LPNE-Philadelphial GCCACAAACGAGGGAACACATTCTATTGTCTCGCCAGGTAGGTGTTCCATATATTGTTGT 398 SEQ ID NO: 645 LPNE-Lens GCCACAAACGAGGGAACACATTCTATTGTCTCGCCAGGTAGGTGTTCCATATATTGTTGT 398 SEQ ID NO: 646 LLON-DAS GCCTCAAACTAGAGAACATATTCTATTGTCACGACAAGTAGGGGTGCCCTACATAGTAGT 282 SEQ ID NO: 647 FNUC-DAS GCCTCAAACAAGAGAACATATCTTACTTTCTAGACAAGTTGGAGTACCATATATTATTGT 276 SEQ ID NO: 648 CPNE-CWL029 GCCACAAACTAAAGAACATATCTTGCTAGCTCGCCAGGTTGGAGTTCCTTATATCGTTGT 398 SEQ ID NO: 649 EFAE-DAS GCCTCAAACACGTGAACATATCTTATTATCACGTAACGTTGGTGTACCATACATCGTTGT 275 SEQ ID NO: 650 EFAE-V583 GCCTCAAACACGTGAACATATCTTATTATCACGTAACGTTGGTGTACCATACATCGTTGT 398 SEQ ID NO: 651 SAUR-Mu50 GCCACAAACTCGTGAACACATTCTTTTATCACGTAACGTTGGTGTACCAGCATTAGTAGT 398 SEQ ID NO: 652 SAUR-N315 GCCACAAACTCGTGAACACATTCTTTTATCACGTAACGTTGGTGTACCAGCATTAGTAGT 398 SEQ ID NO: 653 SAUR-MW2 GCCACAAACTCGTGAACACATTCTTTTATCACGTAACGTTGGTGTACCAGCATTAGTAGT 398 SEQ ID NO: 654 SAUR-MSSA476 GCCACAAACTCGTGAACACATTCTTTTATCACGTAACGTTGGTGTACCAGCATTAGTAGT 398 SEQ ID NO: 655 SAUR-MRSA252 GCCACAAACTCGTGAACACATTCTTTTATCACGTAACGTTGGTGTACCAGCATTAGTAGT 398 SEQ ID NO: 656 SEPI-12228 GCCACAAACTCGTGAACACATCTTATTATCACGTAACGTTGGTGTACCAGCATTAGTTGT 398 SEQ ID NO: 657 SEPI-RP62A GCCACAAACTCGTGAACACATCTTATTATCACGTAACGTTGGTGTACCAGCATTAGTTGT 398 SEQ ID NO: 658 SMIT-DAS GCCACAAACTCGTGAGCACATCCTTCTTTCACGTCAGGTTGGTGTTAAACACTTGATCGT 266 SEQ ID NO: 659 SSAN-DAS GCCACAAACTCGTGAGCACATCTTGCTTTCACGTCAGGTTGGTGTTAAACACTTGATCGT 307 SEQ ID NO: 660 SMIT-NCTC12261 GCCACAAACTCGTGAGCACATCCTTCTTTCACGTCAGGTTGGTGTTAAACACCTTATCGT 407 SEQ ID NO: 661 SPNE-R6 GCCACAAACTCGTGAGCACATCCTTCTTTCACGTCAGGTTGGTGTTAAACACCTTATCGT 407 SEQ ID NO: 662 SPYO-M1GAS GCCACAAACTCGTGAGCACATCCTTCTTTCACGTCAGGTTGGTGTTAAACACCTTATCGT 407 SEQ ID NO: 663 SMUT-DAS GCCACAAACTCGTGAACACATTCTTCTTTCACGTCAAGTTGGTGTTAAATACCTTATTGT 307 SEQ ID NO: 664 SMUT-UA159 GCCACAAACTCGTGAACACATTCTTCTTTCACGTCAAGTTGGTGTTAAATACCTCATTGT 407 SEQ ID NO: 665 HINF-RdKW20 GCCACAAACTCGTGAACACATCTTATTAGGTCGCCAAGTAGGTGTTCCATACATCATCGT 398 SEQ ID NO: 666 MCAT-DAS GCCACAAACTCGTGAGCACATCCTACTGTCTCGTCAGGTTGGTGTACCATATATCATGGT 249 SEQ ID NO: 667 BPER-TohamaI GCCGCAGACGCGCGAGCACATTTTGCTGTCGCGCCAGGTTGGCGTGCCGTACATCATCGT 398 SEQ ID NO: 668 BPAR-12822 GCCGCAGACGCGCGAGCACATTTTGCTGTCGCGCCAGGTTGGCGTGCCGTACATCATCGT 398 SEQ ID NO: 669 BCEP2-DAS GCCGCAAACGCGTGAGCACATCCTGCTGGCGCGTCAGGTTGGCGTTCCGTACATCATCGT 282 SEQ ID NO: 670 BPSE-1710b GCCGCAAACGCGTGAGCACATCCTGCTGGCGCGTCAGGTCGGTGTGCCGTACATCATCGT 398 SEQ ID NO: 671 SMAL-DAS GCCGCAGACCCGTGAGCACATCCTGCTGTCGCGCCAGGTCGGCGTGCCGTACATCGTCGT 303 SEQ ID NO: 672 PAER-PA01 GCCGCAGACCCGCGAGCACATCCTGCTGTCCCGCCAGGTAGGCGTTCCCTACATCGTCGT 398 SEQ ID NO: 673 KPNE-DAS GCCGCAGACTCGTGAGCACATCCTGCTGGGTCGTCAGGTAGGCGTTCCGTACATCATCGT 282 SEQ ID NO: 674 MAVI-K10 GCCGCAGACCCGCGAGCACGTGCTGCTGGCCCGTCAGGTCGGTGTGCCCTACATCCTGGT 404 SEQ ID NO: 675 MAVI-paratub GCCGCAGACCCGCGAGCACGTGCTGCTGGCCCGTCAGGTCGGTGTGCCCTACATCCTGGT 404 SEQ ID NO: 676 MAISpig-DAS GCCGCAGACCCGTGAGCACGTGCTGCTCGCGCGTCAGGTCGGGGTGCCCTACATCCTGGT 299 SEQ ID NO: 677 MKAN-DAS GCCGCAGACCCGTGAGCACGTGCTGCTCGCACGTCAGGTGGGTGTGCCCTACATCCTGGT 305 SEQ ID NO: 678 MTUB-H37Rv GCCCCAGACCCGCGAGCACGTTCTGCTGGCGCGTCAAGTGGGTGTGCCCTACATCCTGGT 404 SEQ ID NO: 679 MTUB-CDC1551 GCCCCAGACCCGCGAGCACGTTCTGCTGGCGCGTCAAGTGGGTGTGCCCTACATCCTGGT 404 SEQ ID NO: 680 MAVI-DAS GCCGCAGACCCGCGAGCACGTGCTGCTCGGCCGTCAGGTGGGTGTGCCCTACATCCTCGT 245 SEQ ID NO: 681 NCTC13129 GCCTCAGACCCGTGAGCACGTTCTGCTCGCTCGCCAGGTCGGCGTTCCTTACATCCTCGT 404 SEQ ID NO: 682 NMEN-MC58 GCCGCAAACCCGCGAACACATCCTGCTGGCCCGCCAAGTAGGCGTACCTTACATCATCGT 398 SEQ ID NO: 683 NMEN-Z2491 GCCGCAAACCCGCGAACACATCCTGCTGGCCCGTCAAGTAGGCGTACCTTACATCATCGT 398 SEQ ID NO: 684 NMEN-DAS GCCGCAAACCCGCGAACACATCCTGCTGGCCCGTCAAGTAGGCGTACCTTACATCATCGT 239 SEQ ID NO: 685 MPNE-HF2 TTTCTTAAACAAATGTGATATGGTA------TCTGATGCTGAAATGCAAGACCTAGTAGA 452 SEQ ID NO: 686 MPNE-M129 GTTCCTAAACAAGTGTGACATTGCA------ACTGATGAAGAAGTGCAAGAGTTAGTAGC 452 SEQ ID NO: 687 LPNE-Paris GTTCATGAACAAAGCGGATATGGTT------GATGACCCTGAGTTATTAGAGTTAGTGGA 465 SEQ ID NO: 688 LPNE2-DAS GTTCATGAACAAAGCGGATATGGTT------GATGACCCTGAGTTATTAGAGTTAGTGGA 335 SEQ ID NO: 689 LPNE-Philadelphial GTTCATGAACAAAGCGGATATGGTT------GATGACCCTGAGTTATTAGAGTTAGTGGA 452 SEQ ID NO: 690 LPNE-Lens GTTCATGAACAAAGCGGATATGGTT------GATGACCCTGAGTTATTAGAGTTAGTGGA 452 SEQ ID NO: 691 LLON-DAS GTTTATGAATAAAGCGGACATGGTT------GATGATCCAGAGCTCTTAGAGCTTGTAGA 336 SEQ ID NO: 692 FNUC-DAS TTATTTAAATAAATCAGATATGGTT------GATGATGAAGAATTACTAGAATTGGTAGA 330 SEQ ID NO: 693 CPNE-CWL029 TTTCTTGAATAAAGTAGATATGATCTCTCAAGAAGATGCTGAACTTATTGACCTTGTTGA 458 SEQ ID NO: 694 EFAE-DAS ATTCTTAAACAAAATGGATATGGTT------GATGACGAAGAATTATTAGAATTAGTAGA 329 SEQ ID NO: 695 EFAE-V583 ATTCTTAAACAAAATGGATATGGTT------GATGACGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 696 SAUR-Mu50 ATTCTTAAACAAAGTTGACATGGTT------GACGATGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 697 SAUR-N315 ATTCTTAAACAAAGTTGACATGGTT------GACGATGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 698 SAUR-MW2 ATTCTTAAACAAAGTTGACATGGTT------GACGATGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 699 SAUR-MSSA476 ATTCTTAAACAAAGTTGACATGGTT------GACGATGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 700 SAUR-MRSA252 ATTCTTAAACAAAGTTGACATGGTT------GACGATGAAGAATTATTAGAATTAGTAGA 452 SEQ ID NO: 701 SEPI-12228 ATTCTTAAACAAAGTTGACATGGTA------GACGACGAAGAATTATTAGAATTAGTTGA 452 SEQ ID NO: 702 SEPI-RP62A ATTCTTAAACAAAGTTGACATGGTA------GACGACGAAGAATTATTAGAATTAGTTGA 452 SEQ ID NO: 703 SMIT-DAS CTTCATGAACAAAGTTGACTTGGTT------GACGATGAAGAATTGCTTGAATTGGTTGA 320 SEQ ID NO: 704 SSAN-DAS CTTCATGAACAAAGTTGACTTGGTT------GACGATGAAGAATTGCTTGAATTGGTTGA 361 SEQ ID NO: 705 SMIT-NCTC12261 CTTCATGAACAAAGTTGACTTGGTT------GACGACGAAGAATTGCTTGAATTGGTTGA 461 SEQ ID NO: 706

SPNE-R6 CTTCATGAACAAAGTTGACTTGGTT------GACGACGAAGAATTGCTTGAATTGGTTGA 461 SEQ ID NO: 707 SPYO-M1GAS GTTCATGAACAAAGTTGACCTTGTT------GATGACGAAGAGTTGCTTGAATTAGTTGA 461 SEQ ID NO: 708 SMUT-DAS CTTCATGAATAAGGTTGATTTGGTT------GATGATGAAGAACTGCTTGAATTGGTTGA 361 SEQ ID NO: 709 SMUT-UA159 CTTCATGAATAAAGTTGATTTGGTT------GACGATGAAGAATTGCTTGAATTGGTTGA 461 SEQ ID NO: 710 HINF-RdKW20 ATTCTTAAACAAATGCGACATGGTA------GATGACGAAGAGTTATTAGAATTAGTCGA 452 SEQ ID NO: 711 MCAT-DAS ATTCATGAACAAGTGCGACATGGTA------GATGATGAAGAGCTACTAGAATTGGTTGA 303 SEQ ID NO: 712 BPER-TohamaI GTTCCTGAACAAGGCGGACATGGTT------GATGACGCGGAGCTGCTCGAGCTGGTGGA 452 SEQ ID NO: 713 BPAR-12822 GTTCCTGAACAAGGCGGACATGGTT------GATGACGCGGAGCTGCTCGAGCTGGTGGA 452 SEQ ID NO: 714 BCEP2-DAS GTTCCTGAACAAGTGCGACATGGTG------GACGACGCTGAACTGCTCGAGCTGGTCGA 336 SEQ ID NO: 715 BPSE-1710b GTTCCTGAACAAGTGCGATATGGTG------GACGACGCGGAGCTGCTCGAGCTGGTCGA 452 SEQ ID NO: 716 SMAL-DAS GTTCCTGAACAAGGCCGACATGGTC------GACGACGCCGAGCTGCTCGAGCTGGTCGA 357 SEQ ID NO: 717 PAER-PA01 GTTCCTGAACAAGGCCGACATGGTC------GACGACGCCGAGCTGCTGGAACTGGTCGA 452 SEQ ID NO: 718 KPNE-DAS GTTCCTGAACAAATGCGACATGGTT------GATGACGAAGAGCTGCTGGAACTGGTTGA 336 SEQ ID NO: 719 MAVI-K10 CGCGCTGAACAAGGCCGACATGGTC------GACGACGAGGAGCTGCTCGAGCTCGTCGA 458 SEQ ID NO: 720 MAVI-paratub CGCGCTGAACAAGGCCGACATGGTC------GACGACGAGGAGCTGCTCGAGCTCGTCGA 458 SEQ ID NO: 721 MAISpig-DAS CGCCCTCAACAAGGCCGACATGGTC------GACGACGAGGAGCTGCTCGAGCTCGTCGA 353 SEQ ID NO: 722 MKAN-DAS CGCGCTGAACAAGGCCGACGCCGTC------GACGACGAGGAGTTGCTCGAACTCGTCGA 359 SEQ ID NO: 723 MTUB-H37Rv AGCGCTGAACAAGGCCGACGCAGTG------GACGACGAGGAGCTGCTCGAACTCGTCGA 458 SEQ ID NO: 724 MTUB-CDC1551 AGCGCTGAACAAGGCCGACGCAGTG------GACGACGAGGAGCTGCTCGAACTCGTCGA 458 SEQ ID NO: 725 MAVI-DAS GGCGCTGAACAAGTCGGACATGGTC------GACGACGAGGAGCTGCTCGAGCTCGTCGA 299 SEQ ID NO: 726 NCTC13129 TGCTCTGAACAAGTGCGACATGGTT------GATGATGAGGAAATCATCGAGCTCGTCGA 458 SEQ ID NO: 727 NMEN-MC58 GTTCATGAACAAATGCGACATGGTC------GACGATGCCGAGCTGTTGGAACTGGTTGA 452 SEQ ID NO: 728 NMEN-Z2491 GTTCATGAACAAATGCGACATGGTC------GACGATGCCGAGCTGTTGGAACTGGTTGA 452 SEQ ID NO: 729 NMEN-DAS GTTCATGAACAAATGCGACATGGTC------GACGATGCCGAGCTGTTGGAACTGGTTGA 293 SEQ ID NO: 730 MPNE-HF2 AATGGAAGTTAGAGAATTACTTTCTTCTTATGGTTTTGATGGAGATAACACTCCAGTTAT 512 SEQ ID NO: 731 MPNE-M129 AGAAGAGGTACGTGACTTATTAACTTCTTACGGCTTTGATGGCAAGAACACCCCTATTAT 512 SEQ ID NO: 732 LPNE-Paris AATGGAAGTGCGAGATTTATTAAGCAGTTACGATTTCCCAGGGGATGACATACCTATTGT 525 SEQ ID NO: 733 LPNE2-DAS AATGGAAGTGCGAGATTTATTAAGCAGTTACGATTTCCCAGGGGATGACATACCCATTGT 395 SEQ ID NO: 734 LPNE-Philadelphial AATGGAAGTGCGAGATTTATTAAGCAGTTACGATTTCCCAGGGGATGACATACCTATTGT 512 SEQ ID NO: 735 LPNE-Lens AATGGAAGTGCGAGATTTATTAAGCAGTTACGATTTCCCAGGGGATGATATACCTATTAT 512 SEQ ID NO: 736 LLON-DAS AATGGAAGTCCGTGATTTGTTGAGCAGTTATGATTTTCCTGGTGATGATATTCCAATTGT 396 SEQ ID NO: 737 FNUC-DAS AATGGAAGTTAGAGAATTATTAACTGAATATGGATTCCCAGGAGATGACATCCCTGTAAT 390 SEQ ID NO: 738 CPNE-CWL029 GATGGAACTTAGTGAGCTTCTTGAAGAAAAAGGCT--ACAAAGGATG----CCCTATTAT 512 SEQ ID NO: 739 EFAE-DAS AATGGAAGTTCGTGACTTATTATCAGAATACGATTTCCCAGGCGATGATGTTCCAGTTAT 389 SEQ ID NO: 740 EFAE-V583 AATGGAAGTTCGTGACTTATTATCAGAATACGATTTCCCAGGCGATGATGTTCCAGTTAT 512 SEQ ID NO: 741 SAUR-Mu50 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 742 SAUR-N315 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 743 SAUR-MW2 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 744 SAUR-MSSA476 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 745 SAUR-MRSA252 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 746 SEPI-12228 AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 747 SEPI-RP62A AATGGAAGTTCGTGACTTATTAAGCGAATATGACTTCCCAGGTGACGATGTACCTGTAAT 512 SEQ ID NO: 748 SMIT-DAS AATGGAAATCCGTGACCTTCTTTCAGAATACGATTTCCCAGGTGATGACCTTCCAGTTAT 380 SEQ ID NO: 749 SSAN-DAS AATGGAAATCCGTGACCTCTTGTCAGAATACGACTTCCCAGGTGACGATCTTCCAGTTAT 421 SEQ ID NO: 750 SMIT-NCTC12261 AATGGAAATCCGTGACCTATTGTCAGAATACGACTTCCCAGGTGACGATCTTCCAGTTAT 521 SEQ ID NO: 751 SPNE-R6 AATGGAAATCCGTGACCTATTGTCAGAATACGACTTCCCAGGTGACGATCTTCCAGTTAT 521 SEQ ID NO: 752 SPYO-M1GAS GATGGAAATTCGTGACCTTCTTTCAGAATACGATTTCCCAGGTGATGACCTTCCAGTTAT 521 SEQ ID NO: 753 SMUT-DAS AATGGAAATCCGTGATCTTCTTTCAGAATATGATTTCCCAGGTGATGATATTCCAGTTAT 421 SEQ ID NO: 754 SMUT-UA159 AATGGAAATCCGTGATCTTCTTTCAGAATATGATTTCCCAGGTGATGATATTCCAGTTAT 521 SEQ ID NO: 755 HINF-RdKW20 AATGGAAGTTCGTGAACTTCTATCTCAATATGACTTCCCAGGTGACGATACACCAATCGT 512 SEQ ID NO: 756 MCAT-DAS AATGGAAGTTCGTGAACTTCTATCTGACTATGACTTCCCAGGTGATGACACCCCAATCAT 363 SEQ ID NO: 757 BPER-TohamaI GATGGAAGTCCGCGAACTGCTGAGCAAGTACGATTTCCCGGGCGATGACACGCCGATCGT 512 SEQ ID NO: 758 BPAR-12822 GATGGAAGTCCGCGAACTGCTGAGCAAGTACGATTTCCCGGGCGATGACACGCCGATCGT 512 SEQ ID NO: 759 BCEP2-DAS GATGGAAGTTCGCGAACTGCTGTCGAAGTACGACTTCCCGGGCGACGACACGCCGATCAT 396 SEQ ID NO: 760 BPSE-1710b AATGGAAGTGCGCGAACTGCTGTCGAAGTACGACTTCCCGGGCGACGACACGCCGATCAT 512 SEQ ID NO: 761 SMAL-DAS GATGGAAGTGCGCGAACTGCTGAGCAAGTACGAGTTCCCGGGCGACGACACCCCGATCAT 417 SEQ ID NO: 762 PAER-PA01 GATGGAAGTTCGCGATCTGCTGAACACCTACGACTTCCCGGGCGACGACACTCCGATCAT 512 SEQ ID NO: 763 KPNE-DAS GATGGAAGTTCGTGAACTGCTGTCTCAGTACGATTTCCCGGGCGACGACACCCCGATCGT 396 SEQ ID NO: 764 MAVI-K10 GATGGAGGTCCGCGAGCTGCTGGCCGCCCAGGAGTTC---GACGAGGACGCCCCGGTGGT 515 SEQ ID NO: 765 MAVI-paratub GATGGAGGTCCGCGAGCTGCTGGCCGCCCAGGAGTTC---GACGAGGACGCCCCGGTGGT 515 SEQ ID NO: 766 MAISpig-DAS GATGGAGGTCCGCGAACTGCTGGCCGCCCAGGAGTTC---GACGAGGACGCCCCGGTGGT 410 SEQ ID NO: 767 MKAN-DAS GATGGAGGTCCGCGAGCTGCTGGCCGCCCAGGAGTTC---GACGAGGACGCCCCGGTGGT 416 SEQ ID NO: 768 MTUB-H37Rv GATGGAGGTCCGCGAGCTGCTGGCTGCCCAGGAATTC---GACGAGGACGCCCCGGTTGT 515 SEQ ID NO: 769 MTUB-CDC1551 GATGGAGGTCCGCGAGCTGCTGGCTGCCCAGGAATTC---GACGAGGACGCCCCGGTTGT 515 SEQ ID NO: 770 MAVI-DAS GATGGAGGTCCGCGAACTGCTGGCCGCCCAGGAGTTC---GACGAGGACGCCCCGGTCAT 356 SEQ ID NO: 771 NCTC13129 GATGGAGATCCGTGAGCTGCTCGCTGAGCAGGATTAC---GACGAAGAGGCTCCAATCAT 515 SEQ ID NO: 772 NMEN-MC58 AATGGAAATCCGCGACCTGCTGTCCAGCTACGACTTCCCCGGCGATGACTGCCCGATTGT 512 SEQ ID NO: 773 NMEN-Z2491 AATGGAAATCCGCGACCTGCTGTCCAGCTACGACTTCCCCGGCGACGACTGCCCGATCGT 512 SEQ ID NO: 774 NMEN-DAS AATGGAAATCCGCGACCTGCTGTCCAGCTACGACTTCCCCGGCGACGACTGCCCGATTGT 353 SEQ ID NO: 775 MPNE-HF2 TAGAGGTTCAGCTTTAAAAGCATTAGAAGGT---GAT----GCTACTTGAGAAGCTAAA- 564 SEQ ID NO: 776 MPNE-M129 TTATGGTTCTGCACTTAAAGCGCTTGAAGGT---GAT----CCTAAGTGGGAAGCTAAG- 564 SEQ ID NO: 777 LPNE-Paris TGTTGGTTCAGCTTTGAAAGCATTGGAAGGT---GAAGACAGTGATATAGGCGTTAAGGC 582 SEQ ID NO: 778 LPNE2-DAS TGTTGGTTCAGCTTTGAAAGCATTGGAAGGT---GAAGACAGTGATATAGGCGTTAAGGC 452 SEQ ID NO: 779 LPNE-Philadelphial TGTTGGTTCAGCTTTGAAAGCATTGGAAGGT---GAAGACAGTGATATAGGCGTTAAGGC 569 SEQ ID NO: 780 LPNE-Lens TGTTGGTTCAGCTTTGAAAGCATTGGAAGGT---GAAGACAGTGATATAGGTGTTAAGGC 569 SEQ ID NO: 781 LLON-DAS TGTTGGATCTGCATTGAAAGCATTAGAAGGT---GATACCAGTGATATTGGGGTGCCAGC 453 SEQ ID NO: 782 FNUC-DAS TAGAGGTTCATCATTAGGAGCTTTAAATGGT---GA----AGAAAAATGGATAGAAAAG- 442 SEQ ID NO: 783 CPNE-CWL029 CCGTGGTTCTGCTTTGAAAGCTCTTGAAGGT---GATGCAAATTATATCGA---AAAAG- 565 SEQ ID NO: 784 EFAE-DAS CGCAGGTTCTGCTTTGAAAGCTTTAGAAGGC---GAC----GAGTCTTATGAAGAAAAA- 441 SEQ ID NO: 785 EFAE-V583 CGCAGGTTCTGCTTTGAAAGCTTTAGAAGGC---GAC----GAGTCTTATGAAGAAAAA- 564 SEQ ID NO: 786 SAUR-Mu50 CGCTGGTTCAGCATTAAAAGCTTTAGAAGGC---GAT----GCTCAATACGAAGAAAAA- 564 SEQ ID NO: 787 SAUR-N315 CGCTGGTTCAGCATTAAAAGCTTTAGAAGGC---GAT----GCTCAATACGAAGAAAAA- 564 SEQ ID NO: 788 SAUR-MW2 CGCTGGTTCAGCATTAAAAGCTTTAGAAGGC---GAT----GCTCAATACGAAGAAAAA- 564 SEQ ID NO: 789

SAUR-MSSA476 CGCTGGTTCAGCATTAAAAGCTTTAGAAGGC---GAT----GCTCAATACGAAGAAAAA- 564 SEQ ID NO: 790 SAUR-MRSA252 CGCTGGTTCAGCATTAAAAGCTTTAGAAGGC---GAT----GCTCAATACGAAGAAAAA- 564 SEQ ID NO: 791 SEPI-12228 CGCTGGTTCTGCATTAAAAGCATTAGAAGGC---GAT----GCTGAATACGAACAAAAA- 564 SEQ ID NO: 792 SEPI-RP62A CGCTGGTTCTGCATTAAAAGCATTAGAAGGC---GAT----GCTGAATACGAACAAAAA- 564 SEQ ID NO: 793 SMIT-DAS CCAAGGTTCAGCTCTTAAAGCTCTTGAAGGT---GAT----GCTAAATACGAAGACATC- 432 SEQ ID NO: 794 SSAN-DAS CCAAGGTTCAGCTCTTAAAGCTCTTGAAGGT---GAC----TCTAAATATGAAGACATC- 473 SEQ ID NO: 795 SMIT-NCTC12261 CCAAGGTTCAGCTCTTAAAGCCCTTGAAGGT---GAC----ACTAAATACGAAGACATC- 573 SEQ ID NO: 796 SPNE-R6 CCAAGGTTCAGCACTTAAAGCTCTTGAAGGT---GAC----TCTAAATACGAAGACATC- 573 SEQ ID NO: 797 SPYO-M1GAS CCAAGGTTCAGCTCTTAAAGCTCTTGAAGGC---GAC----ACTAAATTTGAAGACATC- 573 SEQ ID NO: 798 SMUT-DAS TCAAGGTTCAGCTCTTAAAGCTCTTGAAGGT---GAT----ACTGCTCAAGAAGATATC- 473 SEQ ID NO: 799 SMUT-UA159 TCAAGGTTCAGCTCTTAAAGCTCTTGAAGGC---GAT----ACTGCTCAAGAAGATATC- 573 SEQ ID NO: 800 HINF-RdKW20 ACGTGGTTCAGCATTACAAGCGTTAAACGGC---GTA----GCAGAATGGGAAGAAAAA- 564 SEQ ID NO: 801 MCAT-DAS CAAAGGTTCAGCACTAGAAGCATTGAATGGT---TCTGACGGTAAATATGGTGAGCCTGC 420 SEQ ID NO: 802 BPER-TohamaI GAAGGGTTCGGCCAAGCTGGCGCTGGAAGGC---GACAAGGGCGAACTGGGCGAGCAGGC 569 SEQ ID NO: 803 BPAR-12822 GAAGGGTTCGGCCAAGCTGGCGCTGGAAGGC---GACAAGGGCGAACTGGGCGAGCAGGC 569 SEQ ID NO: 804 BCEP2-DAS CAAGGGTTCGGCAAAGCTGGCGCTGGAAGGC---GACAAGGGCGAGCTGGGCGAAACGGC 453 SEQ ID NO: 805 BPSE-1710b CAAGGGTTCGGCGAAGCTGGCGCTGGAAGGC---GACAAGGGCGAGCTGGGCGAAGTGGC 569 SEQ ID NO: 806 SMAL-DAS CGCCGGTTCGGCCCGCCTGGCGCTGGAAGGC---GACCAGAGCGACATCGGCGTGCCGGC 474 SEQ ID NO: 807 PAER-PA01 CATCGGTTCCGCGCTGATGGCGCTGGAAGGCAAGGATGACAACGGCATCGGCGTAAGCGC 572 SEQ ID NO: 808 KPNE-DAS TCGTGGTTCTGCTCTGAAAGCGCTGGAAGGC---GAC----GCAGAGTGGG--AAGCGAA 447 SEQ ID NO: 809 MAVI-K10 GCGGGTGTCGGCGCTCAAGGCGCTCGAGGGC---GAC----GCCAAGTGGGTGGAGT--C 566 SEQ ID NO: 810 MAVI-paratub GCGGGTGTCGGCGCTCAAGGCGCTCGAGGGC---GAC----GCCAAGTGGGTGGAGT--C 566 SEQ ID NO: 811 MAISpig-DAS GCGCGTCTCGGCGCTGAAGGCGCTCGAGGGC---GAC----GCCAAGTGGGTGGAGT--C 461 SEQ ID NO: 812 MKAN-DAS GCGGGTCTCGGCACTGAAGGCCCTCGAGGGC---GAC----CCCAAGTGGGTGGAGT--C 467 SEQ ID NO: 813 MTUB-H37Rv GCGGGTCTCGGCGCTCAAGGCGCTCGAGGGT---GAC----GCGAAGTGGGTTGCCT--C 566 SEQ ID NO: 814 MTUB-CDC1551 GCGGGTCTCGGCGCTCAAGGCGCTCGAGGGT---GAC----GCGAAGTGGGTTGCCT--C 566 SEQ ID NO: 815 MAVI-DAS CCGCGTCTCCGCGCTGAAGGCGCTGGAGGGT---GAC----CCGAAGTGGGTCAAGT--C 407 SEQ ID NO: 816 CIDP-NCTC13129 CCACATCTCCGCACTGAAGGCTCTTGAGGGC---GAC----GAGAAGTGGACCCAGT--C 566 SEQ ID NO: 817 NMEN-MC58 ACAAGGTTCCGCACTGAAAGCCTTGGAAGGC---GAT----GCCGCTTACGAAGAAA--A 563 SEQ ID NO: 818 NMEN-Z2491 ACAAGGTTCCGCACTGAAAGCCTTGGAAGGC---GAT----GCCGCTTACGAAGAAA--A 563 SEQ ID NO: 819 NMEN-DAS ACAAGGTTCTGCACTGAAAGCCTTGGAAGGC---GAT----GCCGCTTATGAAGAGA--A 404 SEQ ID NO: 820 MPNE-HF2 -ATTGATGAATTAATGGCTTCAGTAGATAGCTACATCCCAACTCCAACAAGAGATACAGA 623 SEQ ID NO: 821 MPNE-M129 -ATCCATGATTTAATGAATGCAGTTGATGAATGGATTCCAACTCCTGAACGTGAAGTGGA 623 SEQ ID NO: 822 LPNE-Paris TATAGAGAAATTGGTTGAAACAATGGATTCATACATTCCTGAGCCAGTTAGAAACATAGA 642 SEQ ID NO: 823 LPNE2-DAS TATTGAGAAATTGGTTGAAACAATGGATTCATACATTCCTGAGCCAGTTAGAAATATAGA 512 SEQ ID NO: 824 LPNE-Philadelphial TATTGAGAAATTGGTTGAAACAATGGATTCATACATTCCTGAGCCAGTTAGAAACATAGA 629 SEQ ID NO: 825 LPNE-Lens TATTGAGAAATTAGTTGAAACAATGGATTCATACATTCCTGAGCCAGTTAGAAACATAGA 629 SEQ ID NO: 826 LLON-DAS AATAGAGAAATTGGTAGAGACTATGGATTCTTATATTCCAGAGCCTGTAAGAAACATTGA 513 SEQ ID NO: 827 FNUC-DAS -ATAATGGAACTTATGGATGCAGTAGATAGCTATATCCCTACTCCTGAAAGAGCAGTAGA 501 SEQ ID NO: 828 CPNE-CWL029 --TTCGAGAACTTATGCAAGCTGTGGATGACAACATCCCTACACCAGAAAGAGAAATTGA 623 SEQ ID NO: 829 EFAE-DAS -ATCTTAGAATTAATGGCTGCAGTTGACGAATATATCCCAACTCCAGAACGTGATACTGA 500 SEQ ID NO: 830 EFAE-V583 -ATCTTAGAATTAATGGCTGCAGTTGACGAATATATCCCAACTCCAGAACGTGATACTGA 623 SEQ ID NO: 831 SAUR-Mu50 -ATCTTAGAATTAATGGAAGCTGTAGATACTTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 832 SAUR-N315 -ATCTTAGAATTAATGGAAGCTGTAGATACTTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 833 SAUR-MW2 -ATCTTAGAATTAATGGAAGCTGTAGATACTTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 834 SAUR-MSSA476 -ATCTTAGAATTAATGGAAGCTGTAGATACTTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 835 SAUR-MRSA252 -ATCTTAGAATTAATGGAAGCTGTAGATACTTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 836 SEPI-12228 -ATCTTAGACTTAATGCAAGCAGTTGATGATTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 837 SEPI-RP62A -ATCTTAGACTTAATGCAAGCAGTTGATGATTACATTCCAACTCCAGAACGTGATTCTGA 623 SEQ ID NO: 838 SMIT-DAS -ATCATGGACTTGATGAACACTGTTGATGAGTACATCCCAGAACCAGAACGCGATACTGA 491 SEQ ID NO: 839 SSAN-DAS -ATCATGGAATTGATGGACACTGTTGATGAGTACATCCCAGAACCAGAACGCGATACTGA 532 SEQ ID NO: 840 SMIT-NCTC12261 -GTTATGGAATTGATGAACACAGTTGATGAGTACATCCCAGAACCAGAACGTGACACTGA 632 SEQ ID NO: 841 SPNE-R6 -GTTATGGAATTGATGAACACAGTTGATGAGTATATCCCAGAACCAGAACGTGACACTGA 632 SEQ ID NO: 842 SPYO-M1GAS -ATCATGGAATTGATGGATACTGTTGATTCATACATTCCAGAACCAGAACGCGACACTGA 632 SEQ ID NO: 843 SMUT-DAS -ATCATGGAATTAATGCATACTGTTGATGACTACATTCCAGATCCAGAACGTGATACTGA 532 SEQ ID NO: 844 SMUT-UA159 -ATCATGGAATTAATGCATACTGTTGATGACTACATTCCAGATCCAGAACGTGATACTGA 632 SEQ ID NO: 845 HINF-RdKW20 -ATCCTTGAGTTAGCAAACCACTTAGATACTTACATCCCAGAACCAGAACGTGCGATTGA 623 SEQ ID NO: 846 MCAT-DAS TGTTCTAGAACTACTAGACACGCTAGATTCATACATCCCAGAGCCTGAGCGTGACATCGA 480 SEQ ID NO: 847 BPER-TohamaI GATTCTGTCGCTGGCGCAAGCGCTGGACACGTACATTCCGACGCCGGAGCGCGCGGTCGA 629 SEQ ID NO: 848 BPAR-12822 GATTCTGTCGCTGGCGCAAGCGCTGGACACGTACATTCCGACGCCGGAGCGCGCGGTCGA 629 SEQ ID NO: 849 BCEP2-DAS GATCATGAACCTGGCCGACGCGCTGGACACGTACATCCCGACGCCGGAGCGCGCGGTGGA 513 SEQ ID NO: 850 BPSE-1710b GATCATGAACCTGGCCGACGCGCTGGACACGTACATCCCGACGCCGGAGCGTGCGGTCGA 629 SEQ ID NO: 851 SMAL-DAS CATCCTGAAGCTGGTCGACGCGCTGGACAGCTGGATTCCGGAGCCGGAGCGTGCGATCGA 534 SEQ ID NO: 852 PAER-PA01 CGTGCAGAAGCTGGTAGAGACCCTGGACTCCTACATTCCGGAGCCGGTTCGTGCCATCGA 632 SEQ ID NO: 853 KPNE-DAS AATCATCGAACTGGCTGGCCACCTGGATACCTATATCCCGGAACCAGAGCGTGCGATTGA 507 SEQ ID NO: 854 MAVI-K10 CGTCGAGCAGCTGATGGAGGCCGTCGACGAGTCGATCCCGGACCCGGTCCGCGAGACGGA 626 SEQ ID NO: 855 MAVI-paratub CGTCGAGCAGCTGATGGAGGCCGTCGACGAGTCGATCCCGGACCCGGTCCGCGAGACGGA 626 SEQ ID NO: 856 MAISpig-DAS GGTCGAGCAGCTGATGGAGGCCGTCGACGAGTCGATCCCGGACCCCGTCCGTGAGACCGA 521 SEQ ID NO: 857 MKAN-DAS GGTGGAGCAGCTGATGGATGCGGTCGACGAGTCGATCCCCGACCCGGTCCGTGAGACCGA 527 SEQ ID NO: 858 MTUB-H37Rv TGTCGAGGAACTGATGAACGCGGTCGACGAGTCGATTCCGGACCCGGTCCGCGAGACCGA 626 SEQ ID NO: 859 MTUB-CDC1551 TGTCGAGGAACTGATGAACGCGGTCGACGAGTCGATTCCGGACCCGGTCCGCGAGACCGA 626 SEQ ID NO: 860 MAVI-DAS GGTTGAGGACCTCATGGAGGCCGTCGACGAGTCGATCCCGGATCCGGTTCGCGAGACCGA 467 SEQ ID NO: 861 CIDP-NCTC13129 CATCATCGACCTCATGCAGGCTTGCGATGATTCCATCCCAGACCCAGAGCGTGAGACCGA 626 SEQ ID NO: 862 NMEN-MC58 AATCTTCGAACTGGCTGCCGCATTGGACAGCTACATCCCGACTCCCGAGCGAGCCGTGGA 623 SEQ ID NO: 863 NMEN-Z2491 AATCTTCGAATTGGCTGCTGCATTGGACAGCTACATCCCGACTCCCGAGCGTGCCGTGGA 623 SEQ ID NO: 864 NMEN-DAS AATCTTCGAACTGGCTGCCGCATTGGACAGCTACATCCCGACTCCCGAGCGTGCCGTGGA 464 SEQ ID NO: 865 MPNE-HF2 CAAACCTTTCTTATTAGCGGTAGAAGACGTTATGACTATTACTGGTAGAGGTACTGTAGT 683 SEQ ID NO: 866 MPNE-M129 CAAACCCTTCTTGTTGGCAATCGAAGACACCATGACGATTACTGGCCGTGGTACCGTGGT 683 SEQ ID NO: 867 LPNE-Paris CAAGCCATTTTTGTTACCGATTGAAGACGTATTTTCAATTTCTGGACGCGGAACAGTGGT 702 SEQ ID NO: 868 LPNE2-DAS CAAGCCATTTTTGTTACCGATTGAAGACGTATTTTCAATTTCTGGACGCGGAACAGTGGT 572 SEQ ID NO: 869 LPNE-Philadelphial CAAGCCATTTTTGTTGCCGATTGAAGACGTATTTTCAATTTCTGGACGCGGAACAGTGGT 689 SEQ ID NO: 870 LPNE-Lens CAAGCCATTCTTGTTGCCGATTGAAGACGTGTTTTCAATTTCTGGACGCGGAACAGTGGT 689

SEQ ID NO: 871 LLON-DAS CAAATCGTTCTTATTACCGATTGAAGATGTATTTTCAATATCTGGCCGAGGAACAGTAGT 573 SEQ ID NO: 872 FNUC-DAS TCAACCATTCTTGATGCCAATAGAAGACGTTTTCACTATCACAGGAAGAGGAACAGTTGT 561 SEQ ID NO: 873 CPNE-CWL029 TAAGCCTTTCTTAATGCCTATCGAAGACGTATTCTCAATCTCTGGTCGTGGTACTGTGGT 683 SEQ ID NO: 874 EFAE-DAS CAAACCATTCATGATGCCAGTCGAAGACGTATTCTCAATCACTGGACGTGGTACTGTTGC 560 SEQ ID NO: 875 EFAE-V583 CAAACCATTCATGATGCCAGTCGAAGACGTATTCTCAATCACTGGACGTGGTACTGTTGC 683 SEQ ID NO: 876 SAUR-Mu50 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 877 SAUR-N315 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 878 SAUR-MW2 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 879 SAUR-MSSA476 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 880 SAUR-MRSA252 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 881 SEPI-12228 CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 882 SEPI-RP62A CAAACCATTCATGATGCCAGTTGAGGACGTATTCTCAATCACTGGTCGTGGTACTGTTGC 683 SEQ ID NO: 883 SMIT-DAS CAAACCATTGCTTCTTCCAGTCGAAGACGTATTCTCAATCACTGGACGTGGTACTGTAGC 551 SEQ ID NO: 884 SSAN-DAS CAAGCCATTGCTTCTTCCAGTCGAAGACGTATTCTCAATCACTGGTCGTGGTACAGTTGC 592 SEQ ID NO: 885 SMIT-NCTC12261 CAAACCATTGCTTCTTCCAGTCGAAGACGTATTCTCAATCACTGGTCGTGGTACAGTTGC 692 SEQ ID NO: 886 SPNE-R6 CAAACCATTGCTTCTTCCAGTCGAGGACGTATTCTCAATCACTGGACGTGGTACAGTTGC 692 SEQ ID NO: 887 SPYO-M1GAS CAAACCATTGCTTCTTCCAGTCGAAGACGTATTCTCAATTACAGGTCGTGGTACAGTTGC 692 SEQ ID NO: 888 SMUT-DAS TAAGCCACTCCTTCTTCCAGTCGAAGATGTTTTCTCAATCACTGGTCGTGGTACTGTTGC 592 SEQ ID NO: 889 SMUT-UA159 CAAGCCGCTCCTTCTTCCAGTCGAAGATGTTTTCTCAATCACTGGTCGTGGTACTGTTGC 692 SEQ ID NO: 890 HINF-RdKW20 CCAACCGTTCCTTCTTCCAATCGAAGATGTGTTCTCAATCTCAGGTCGTGGTACTGTAGT 683 SEQ ID NO: 891 MCAT-DAS TAAGTCATTCCTAATGCCAATCGAAGATGTCTTCTCAATCTCAGGTCGTGGTACTGTTGT 540 SEQ ID NO: 892 BPER-TohamaI CGGTGCGTTCCTGATGCCGGTGGAAGACGTGTTCTCGATCTCGGGCCGTGGCACGGTGGT 689 SEQ ID NO: 893 BPAR-12822 CGGTGCGTTCCTGATGCCGGTGGAAGACGTGTTCTCGATCTCGGGCCGTGGCACGGTGGT 689 SEQ ID NO: 894 BCEP2-DAS CGGTACGTTCCTGATGCCGGTGGAAGACGTGTTCTCGATCTCGGGCCGCGGTACGGTGGT 573 SEQ ID NO: 895 BPSE-1710b CGGCGCGTTCCTGATGCCGGTGGAAGACGTGTTCTCGATCTCGGGCCGTGGTACGGTGGT 689 SEQ ID NO: 896 SMAL-DAS CAAGCCGTTCCTGATGCCGGTGGAAGACGTGTTCTCGATCTCGGGCCGCGGCACCGTGGT 594 SEQ ID NO: 897 PAER-PA01 CCAGCCGTTCCTGATGCCGATCGAAGACGTGTTCTCGATCTCCGGCCGCGGTACCGTGGT 692 SEQ ID NO: 898 KPNE-DAS CAAGCCGTTCCTGCTGCCGATCGAAGACGTATTCTCCATCTCCGGTCGTGGTACCGTTGT 567 SEQ ID NO: 899 MAVI-K10 CAAGCCGTTCCTGATGCCGGTGGAGGACGTCTTCACCATCACCGGTCGTGGCACGGTGGT 686 SEQ ID NO: 900 MAVI-paratub CAAGCCGTTCCTGATGCCGGTGGAGGACGTCTTCACCATCACCGGTCGTGGCACGGTGGT 686 SEQ ID NO: 901 MAISpig-DAS GAAGCCGTTCCTGATGCCGGTGGAGGACGTCTTCACGATCACCGGTCGTGGCACCGTGGT 581 SEQ ID NO: 902 MKAN-DAS CAAGCCGTTCCTGATGCCCGTCGAGGACGTCTTCACGATCACCGGCCGCGGCACCGTGGT 587 SEQ ID NO: 903 MTUB-H37Rv CAAGCCGTTCCTGATGCCGGTCGAGGACGTCTTCACCATTACCGGCCGCGGAACCGTGGT 686 SEQ ID NO: 904 MTUB-CDC1551 CAAGCCGTTCCTGATGCCGGTCGAGGACGTCTTCACCATTACCGGCCGCGGAACCGTGGT 686 SEQ ID NO: 905 MAVI-DAS CAAGCCGTTCCTGATGCCCGTCGAGGACGTCTTCACCATCACCGGTCGTGGCACCGTGGT 527 SEQ ID NO: 906 CIDP-NCTC13129 CAAGCCATTCCTCATGCCTATCGAGGACATCTTCACCATCACCGGCCGCGGTACCGTTGT 686 SEQ ID NO: 907 NMEN-MC58 CAAACCGTTCCTGCTGCCTATCGAAGACGTGTTCTCCATTTCCGGCCGCGGTACAGTAGT 683 SEQ ID NO: 908 NMEN-Z2491 CAAACCTTTCTTGTTGCCTATCGAAGACGTATTCTCTATTTCCGGTCGTGGTACAGTAGT 683 SEQ ID NO: 909 NMEN-DAS CAAACCTTTCCTGCTGCCTATCGAAGACGTGTTCTCCATTTCCGGCCGAGGTACAGTAGT 524 SEQ ID NO: 910 MPNE-HF2 AACTGGTAGAGTTGAAAGAGGTACTTTAAAATTAAACGATGAAGTTGAAATCGTTGGTAT 743 SEQ ID NO: 911 MPNE-M129 TACCGGTCGGGTTGAACGTGGTGAATTGAAAGTAGGTCAAGAAATTGAAATCGTTGGTTT 743 SEQ ID NO: 912 LPNE-Paris AACTGGTCGTGTTGAGAGTGGAATTGTTAAAGTTGGTGAGGAAGTTGAAATTGTTGGAAT 762 SEQ ID NO: 913 LPNE2-DAS AACTGGTCGTGTTGAGAGTGGAATTGTTAAAGTTGGTGAGGAAGTTGAAATTGTTGGAAT 632 SEQ ID NO: 914 LPNE-Philadelphial AACTGGTCGTGTAGAGAGTGGAATTGTTAAAGTTGGTGAGGAAGTTGAAATTGTTGGAAT 749 SEQ ID NO: 915 LPNE-Lens AACTGGTCGTGTTGAGAGTGGAATTGTTAAAGTTGGTGAGGAAGTTGAAATTGTTGGAAT 749 SEQ ID NO: 916 LLON-DAS AACAGGACGTATCGAAAGCGGAATTATCAAAGTTGGCGAAGAGATCGAAATTGTAGGAAT 633 SEQ ID NO: 917 FNUC-DAS TACAGGAAGAGTTGAAAGAGGAATCATCAAAGTTGGAGAAGAAATTGAAATAGTTGGAAT 621 SEQ ID NO: 918 CPNE-CWL029 TACAGGAAGAATCGAGCGTGGAATCGTTAAAGTTTCTGATAAAGTTCAGCTCGTGGGATT 743 SEQ ID NO: 919 EFAE-DAS TACAGGACGTGTTGAACGTGGTGAAGTTCGCGTTGGTGACGAAGTTGAAATCGTTGGTAT 620 SEQ ID NO: 920 EFAE-V583 TACAGGCCGTGTTGAACGTGGTGAAGTTCGCGTTGGTGACGAAGTTGAAATCGTTGGTAT 743 SEQ ID NO: 921 SAUR-Mu50 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTTT 743 SEQ ID NO: 922 SAUR-N315 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTTT 743 SEQ ID NO: 923 SAUR-MW2 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTTT 743 SEQ ID NO: 924 SAUR-MSSA476 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTTT 743 SEQ ID NO: 925 SAUR-MRSA252 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTTT 743 SEQ ID NO: 926 SEPI-12228 TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTAT 743 SEQ ID NO: 927 SEPI-RP62A TACAGGCCGTGTTGAACGTGGTCAAATCAAAGTTGGTGAAGAAGTTGAAATCATCGGTAT 743 SEQ ID NO: 928 SMIT-DAS ATCAGGACGTATCGACCGTGGTATCGTTAAAGTCAACGACGAAATCGAAATCGTTGGTAT 611 SEQ ID NO: 929 SSAN-DAS TTCAGGACGTATCGACCGTGGTATCGTTAAAGTCAACGACGAAATCGAAATCGTTGGTAT 652 SEQ ID NO: 930 SMIT-NCTC12261 TTCAGGACGTATCGACCGTGGTATCGTTAAAGTCAACGACGAAATCGAAATCGTTGGTAT 752 SEQ ID NO: 931 SPNE-R6 TTCAGGACGTATCGACCGTGGTATCGTTAAAGTCAACGACGAAATCGAAATCGTTGGTAT 752 SEQ ID NO: 932 SPYO-M1GAS TTCAGGACGTATCGACCGTGGTACTGTTCGTGTCAACGACGAAATCGAAATCGTTGGTAT 752 SEQ ID NO: 933 SMUT-DAS TTCAGGACGTATTGATCGTGGTACTGTTAAAGTTAACGATGAAGTTGAAATCGTTGGTAT 652 SEQ ID NO: 934 SMUT-UA159 TTCAGGACGTATTGATCGTGGTACTGTTAAAGTTAACGATGAAGTTGAAATCGTTGGTAT 752 SEQ ID NO: 935 HINF-RdKW20 AACAGGTCGTGTAGAACGAGGTATTATCCGTACAGGTGATGAAGTAGAAATCGTCGGTAT 743 SEQ ID NO: 936 MCAT-DAS AACTGGCCGTGTTGAATCAGGCATTATTAAAGTTGGTGATGAAATTGAAATCATCGGTAT 600 SEQ ID NO: 937 BPER-TohamaI GACTGGCCGTATCGAGCGCGGCGTGGTGAAGGTTGGCGAGGAAATCGAAATCGTGGGCAT 749 SEQ ID NO: 938 BPAR-12822 GACTGGCCGTATCGAGCGCGGCGTGGTGAAGGTTGGCGAGGAAATCGAAATCGTGGGTAT 749 SEQ ID NO: 939 BCEP2-DAS GACGGGTCGTGTGGAGCGCGGCGTGGTGAAGGTCGGTGAGGAAATCGAAATCGTCGGTAT 633 SEQ ID NO: 940 BPSE-1710b GACGGGTCGTGTCGAGCGCGGCGTGATCAAGGTTGGCGAGGAAATCGAAATCGTCGGTAT 749 SEQ ID NO: 941 SMAL-DAS GACCGGTCGTATCGAGCGCGGCGTGATCAAGGTTGGCGACGAAATCGAAATCGTCGGCAT 654 SEQ ID NO: 942 PAER-PA01 AACCGGTCGTGTAGAGCGCGGCATCATCAAGGTCCAGGAAGAAGTGGAAATCGTCGGCAT 752 SEQ ID NO: 943 KPNE-DAS TACCGGTCGTGTAGAGCGCGGTATCATCAAAGTAGGTGAAGAAGTTGAAATCGTTGGTAT 627 SEQ ID NO: 944 MAVI-K10 CACCGGCCGTGTCGAGCGCGGCGTGATCAACGTGAACGAGGAAGTCGAGATCGTCGGCAT 746 SEQ ID NO: 945 MAVI-paratub CACCGGCCGTGTCGAGCGCGGCGTGATCAACGTGAACGAGGAAGTCGAGATCGTCGGCAT 746 SEQ ID NO: 946 MAISpig-DAS CACCGGTCGTGTCGAGCGCGGTGTGATCAACGTGAACGAGGAAGTCGAGATCGTCGGTAT 641 SEQ ID NO: 947 MKAN-DAS CACCGGTCGTGTGGAGCGCGGCGTGGTCAACGTCAACGAGGAAGTCGAGATCGTCGGCAT 647 SEQ ID NO: 948 MTUB-H37Rv CACCGGACGTGTGGAGCGCGGCGTGATCAACGTGAACGAGGAAGTTGAGATCGTCGGCAT 746 SEQ ID NO: 949 MTUB-CDC1551 CACCGGACGTGTGGAGCGCGGCGTGATCAACGTGAACGAGGAAGTTGAGATCGTCGGCAT 746 SEQ ID NO: 950 MAVI-DAS GACCGGTCGCGTCGAGCGTGGCGTGATCAACGTCAACGAAGAGGTCGAGATCGTCGGCAT 587 SEQ ID NO: 951 NCTC13129 TACCGGCCGTGTTGAGCGTGGCTCCCTGAAGGTCAACGAGGACGTCGAGATCATCGGTAT 746 SEQ ID NO: 952 NMEN-MC58 AACCGGCCGTGTAGAGCGCGGTATCATCCACGTTGGTGACGAGATTGAAATCGTCGGTCT 743 SEQ ID NO: 953

NMEN-Z2491 AACCGGTCGTGTAGAGCGCGGTATCATCCACGTCGGTGACGAGATCGAAATCGTCGGTCT 743 SEQ ID NO: 954 NMEN-DAS AACCGGCCGTGTAGAGCGCGGTATCATCCACGTTGGTGACGAGATTGAAATCGTCGGTCT 584 SEQ ID NO: 955 MPNE-HF2 ---CCATGATACTAGAAAAGCAGTTGTTACTGGTATGGAAATGTTAAGAAAAACATTAGA 800 SEQ ID NO: 956 MPNE-M129 ---ACGTCCAATCCGTAAAGCAGTTGTTACCGGAATCGAAATGTTCAAAAAGGAACTTGA 800 SEQ ID NO: 957 LPNE-Paris ---AAGAGACACTCAAAAGACGACTTGTACGGGTGTTGAGATGTTCCGTAAATTACTTGA 819 SEQ ID NO: 958 LPNE2-DAS ---AAGAGACACCCAAAAGACGACTTGTACGGGTGTTGAGATGTTCCGTAAATTACTTGA 689 SEQ ID NO: 959 LPNE-Philadelphial ---AAGAGACACCCAAAAGACGACTTGTACGGGTGTTGAGATGTTCCGTAAATTACTTGA 806 SEQ ID NO: 960 LPNE-Lens ---AAGAGACACCCAAAAGACGACTTGTACTGGTGTTGAGATGTTCCGTAAATTACTTGA 806 SEQ ID NO: 961 LLON-DAS ---TCGTGATACTGCAAAGACTACCTGTACTGGTGTTGAGATGTTCCGTAAGTTATTAGA 690 SEQ ID NO: 962 FNUC-DAS ---TAAACCTACAACTAAAACAACTTGTACAGGGGTTGAAATGTTTAGAAAACTTCTTGA 678 SEQ ID NO: 963 CPNE-CWL029 ---AGGAGAGACTAAAGAAACAATCGTTACTGGAGTCGAAATGTTCAGGAAAGAACTTCC 800 SEQ ID NO: 964 EFAE-DAS TAAAGACGAAACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 680 SEQ ID NO: 965 EFAE-V583 TAAAGACGAAACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 803 SEQ ID NO: 966 SAUR-Mu50 ---ACATGACACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 967 SAUR-N315 ---ACATGACACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 968 SAUR-MW2 ---ACATGACACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 969 SAUR-MSSA476 ---ACATGACACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 970 SAUR-MRSA252 ---ACATGACACATCTAAAACAACTGTTACAGGTGTTGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 971 SEPI-12228 ---GCACGAAACTTCTAAAACAACTGTTACTGGTGTAGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 972 SEPI-RP62A ---GCACGAAACTTCTAAAACAACTGTTACTGGTGTAGAAATGTTCCGTAAATTATTAGA 800 SEQ ID NO: 973 SMIT-DAS TAAAGAAGAAATCCAAAAAGCGGTTGTTACTGGTGTTGAAATGTTCCGTAAACAACTTGA 671 SEQ ID NO: 974 SSAN-DAS CAAAGAAGAAATCCAAAAAGCAGTTGTTACTGGTGTTGAAATGTTCCGTAAACAGCTTGA 712 SEQ ID NO: 975 SMIT-NCTC12261 CAAAGAAGAAACTCAAAAAGCAGTTGTTACTGGTGTTGAAATGTTCCGTAAACAACTTGA 812 SEQ ID NO: 976 SPNE-R6 CAAAGAAGAAACTCAAAAAGCAGTTGTTACTGGTGTTGAAATGTTCCGTAAACAACTTGA 812 SEQ ID NO: 977 SPYO-M1GAS CAAAGAAGAAACTAAAAAAGCTGTTGTTACTGGTGTTGAAATGTTCCGTAAACAACTTGA 812 SEQ ID NO: 978 SMUT-DAS CCGTGATGACATTCAAAAAGCTGTTGTTACTGGTGTTGAAATGTTCCGTAAACAATTGGA 712 SEQ ID NO: 979 SMUT-UA159 CCGTGATGACATTCAAAAAGCTGTTGTTACTGGTGTTGAAATGTTCCGTAAACAATTGGA 812 SEQ ID NO: 980 HINF-RdKW20 ---CAAAGATACAGCGAAAACTACTGTAACGGGTGTTGAAATGTTCCGTAAATTACTTGA 800 SEQ ID NO: 981 MCAT-DAS ---CAAACCAACTACTAAAACCACTTGTACTGGTGTTGAAATGTTCCGTAAGCTGCTAGA 657 SEQ ID NO: 982 BPER-TohamaI CAAGCCGACGG---TGAAGACGACCTGCACGGGCGTGGAGATGTTCCGCAAGCTGCTGGA 806 SEQ ID NO: 983 BPAR-12822 CAAGCCGACGG---TGAAGACGACCTGCACGGGCGTGGAGATGTTCCGCAAGCTGCTGGA 806 SEQ ID NO: 984 BCEP2-DAS CAAGCCGACGG---TGAAGACGACCTGCACGGGCGTTGAAATGTTCCGCAAGCTGCTGGA 690 SEQ ID NO: 985 BPSE-1710b CAAGCCGACGG---CGAAGACGACCTGCACGGGCGTGGAAATGTTCCGCAAGCTGCTGGA 806 SEQ ID NO: 986 SMAL-DAS CCGTCCGGTGC---AGAAGACCACCGTGACCGGCGTTGAAATGTTCCGCAAGCTGCTGGA 711 SEQ ID NO: 987 PAER-PA01 CAAGGCGACCA---CCAAGACTACCTGCACCGGCGTTGAAATGTTCCGCAAGCTGCTCGA 809 SEQ ID NO: 988 KPNE-DAS CAAAGAAACCG---CGAAAACCACCTGTACTGGCGTTGAAATGTTCCGCAAACTGCTGGA 684 SEQ ID NO: 989 MAVI-K10 CCGCCCGTCCAGCACCAAGACCACGGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 806 SEQ ID NO: 990 MAVI-paratub CCGCCCGTCCAGCACCAAGACCACGGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 806 SEQ ID NO: 991 MAISpig-DAS CAAGCCGACCAGCACCAAGACCACCGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 701 SEQ ID NO: 992 MKAN-DAS CCGTCCGACCACCACCAAGACCACGGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 707 SEQ ID NO: 993 MTUB-H37Rv TCGCCCATCGACCACCAAGACCACCGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 806 SEQ ID NO: 994 MTUB-CDC1551 TCGCCCATCGACCACCAAGACCACCGTCACCGGTGTGGAGATGTTCCGCAAGCTGCTCGA 806 SEQ ID NO: 995 MAVI-DAS CCGCCCGACCACGACCAAGACCACCGTCACCGGTGTGGAAATGTTCCGCAAGCTGCTCGA 647 SEQ ID NO: 996 CIDP-NCTC13129 CCGCGAGAAGGCTACCACCACCACCGTTACCGGTATCGAGATGTTCCGTAAGCTTCTCGA 806 SEQ ID NO: 997 NMEN-MC58 GAAAGAAACCC---AAAAAACCACTTGTACCGGTGTTGAAATGTTCCGCAAACTGCTGGA 800 SEQ ID NO: 998 NMEN-Z2491 GAAAGAAACTC---AAAAAACCACTTGTACCGGTGTTGAAATGTTCCGCAAACTGCTGGA 800 SEQ ID NO: 999 NMEN-DAS GAAAGAAACCC---AAAAAACCACCTGTACCGGTGTTGAAATGTTCCGCAAACTGCTGGA 641 SEQ ID NO: 1000 MPNE-HF2 CGAAGTAAAAGCTGGGGATAACGCTGGTATCTTATTAAGAGGTATTGATAGAAAAGATGT 860 SEQ ID NO: 1001 MPNE-M129 TTCAGCAATGGCTGGGGACAACGCTGGGGTATTACTCCGTGGTGTGGACCGTAAAGAAGT 860 SEQ ID NO: 1002 LPNE-Paris TGAAGGTCGAGCTGGTGATAACGTTGGAGTGTTATTACGAGGTACGAAGCGAGATGAAGT 879 SEQ ID NO: 1003 LPNE2-DAS TGAAGGTCGAGCTGGTGATAACGTTGGTGTGTTATTACGAGGTACGAAGCGAGATGAAGT 749 SEQ ID NO: 1004 LPNE-Philadelphial TGAAGGTCGAGCTGGTGATAACGTTGGTGTGTTATTACGAGGTACGAAGCGAGATGAAGT 866 SEQ ID NO: 1005 LPNE-Lens TGAAGGTCGAGCTGGTGATAACGTTGGTGTGTTATTACGCGGTACGAAGCGAGATGAAGT 866 SEQ ID NO: 1006 LLON-DAS CGAAGGACGTGCAGGTGATAACGTTGGTATATTACTCCGTGGAACAAAACGAGACGAAGT 750 SEQ ID NO: 1007 FNUC-DAS TCAAGGTCAAGCAGGAGATAATATCGGAGTATTATTAAGAGGAACTAAGAAAGAAGAAGT 738 SEQ ID NO: 1008 CPNE-CWL029 TGAAGGTCGTGCAGGAGAAAACGTTGGTTTACTCCTCAGAGGTATTGGAAAGAACGATGT 860 SEQ ID NO: 1009 EFAE-DAS CTACGCTGAAGCAGGCGACAACATCGGTGCTTTATTACGTGGTGTAGCACGTGAAGATAT 740 SEQ ID NO: 1010 EFAE-V583 CTACGCTGAAGCAGGCGACAACATCGGTGCTTTATTACGTGGTGTAGCACGTGAAGATAT 863 SEQ ID NO: 1011 SAUR-Mu50 CTACGCTGAAGCTGGTGACAACATTGGTGCATTATTACGTGGTGTTGCTCGTGAAGACGT 860 SEQ ID NO: 1012 SAUR-N315 CTACGCTGAAGCTGGTGACAACATTGGTGCATTATTACGTGGTGTTGCTCGTGAAGACGT 860 SEQ ID NO: 1013 SAUR-MW2 CTACGCTGAAGCTGGTGACAACATTGGTGCATTATTACGTGGTGTTGCTCGTGAAGACGT 860 SEQ ID NO: 1014 SAUR-MSSA476 CTACGCTGAAGCTGGTGACAACATTGGTGCATTATTACGTGGTGTTGCTCGTGAAGACGT 860 SEQ ID NO: 1015 SAUR-MRSA252 CTACGCTGAAGCTGGTGACAACATTGGTGCATTATTACGTGGTGTTGCTCGTGAAGACGT 860 SEQ ID NO: 1016 SEPI-12228 CTACGCTGAAGCTGGTGACAACATCGGTGCTTTATTACGTGGTGTTGCACGTGAAGACGT 860 SEQ ID NO: 1017 SEPI-RP62A CTACGCTGAAGCTGGTGACAACATCGGTGCTTTATTACGTGGTGTTGCACGTGAAGACGT 860 SEQ ID NO: 1018 SMIT-DAS CGAATGTCTTGCAGGGGACAACGTTGGTGTGCTTCTTCGTGGTATCCAACGTGATGAAAT 731 SEQ ID NO: 1019 SSAN-DAS CGAAGGTCTTGCAGGGGACAACGTAGGTGTGCTTCTCCGTGGTATCCAACGTGATGAAAT 772 SEQ ID NO: 1020 SMIT-NCTC12261 CGAAGGTCTTGCCGGAGATAATGTAGGTGTCCTTCTTCGTGGTGTTCAACGTGATGAAAT 872 SEQ ID NO: 1021 SPNE-R6 CGAAGGTCTTGCTGGAGATAACGTAGGTGTCCTTCTTCGTGGTGTTCAACGTGATGAAAT 872 SEQ ID NO: 1022 SPYO-M1GAS CGAAGGTCTTGCAGGAGACAACGTAGGTATCCTTCTTCGTGGTGTTCAACGTGACGAAAT 872 SEQ ID NO: 1023 SMUT-DAS TGAAGGTATTGCAGGGGATAATGTTGGTGTTCTCCTTCGTGGTATCCAACGTGATGAAAT 772 SEQ ID NO: 1024 SMUT-UA159 TGAAGGTATTGCAGGGGATAATGTTGGTGTTCTCCTTCGTGGTATCCAACGTGATGAAAT 872 SEQ ID NO: 1025 HINF-RdKW20 CGAAGGTCGTGCAGGTGAAAACATCGGTGCATTATTACGTGGTACCAAACGTGAAGAAAT 860 SEQ ID NO: 1026 MCAT-DAS CGAAGGTCGTGCAGGTGAGAACTGTGGTATCCTACTACGTGGTACTAAGCGTGAAGAAGT 717 SEQ ID NO: 1027 BPER-TohamaI CCAGGGCCAGGCGGGCGACAACGTGGGTATCTTGCTGCGCGGCACCAAGCGTGAAGACGT 866 SEQ ID NO: 1028 BPAR-12822 CCAGGGCCAGGCGGGCGACAACGTGGGTATCTTGCTGCGCGGCACCAAGCGTGAAGACGT 866 SEQ ID NO: 1029 BCEP2-DAS CCAGGGTCAGGCAGGCGACAACGTCGGTATCCTGCTGCGCGGCACGAAGCGTGAAGACGT 750 SEQ ID NO: 1030 BPSE-1710b TCAGGGTCAGGCGGGCGACAACGTCGGTATCCTGCTGCGCGGCACGAAGCGTGAAGACGT 866 SEQ ID NO: 1031 SMAL-DAS CCAGGGTCAGGCAGGCGACAACGCTGGCCTGCTGCTGCGCGGCACCAAGCGTGACGACGT 771 SEQ ID NO: 1032 PAER-PA01 CGAAGGTCGTGCTGGTGAGAACGTTGGTATCCTGCTGCGTGGCACCAAGCGTGAAGACGT 869 SEQ ID NO: 1033 KPNE-DAS CGAAGGCCGTGCTGGTGAGAACGTAGGTGTTCTGCTGCGTGGTATCAAACGTGAAGAAAT 744 SEQ ID NO: 1034 MAVI-K10 CCAGGGCCAGGCCGGTGACAACGTCGGTCTGCTGCTGCGTGGTATCAAGCGTGAGGACGT 866 SEQ ID NO: 1035

MAVI-paratub CCAGGGCCAGGCCGGTGACAACGTCGGTCTGCTGCTGCGTGGTATCAAGCGTGAGGACGT 866 SEQ ID NO: 1036 MAISpig-DAS CCAGGGACAGGCCGGCGACAACGTCGGACTGTTGCTGCGTGGCATCAAGCGCGAGGACGT 761 SEQ ID NO: 1037 MKAN-DAS CCAGGGTCAGGCCGGTGACAACGTCGGGCTGTTGCTGCGTGGTGTCAAGCGTGAGGACGT 767 SEQ ID NO: 1038 MTUB-H37Rv CCAGGGCCAGGCGGGCGACAACGTTGGTTTGCTGCTGCGGGGCGTCAAGCGCGAGGACGT 866 SEQ ID NO: 1039 MTUB-CDC1551 CCAGGGCCAGGCGGGCGACAACGTTGGTTTGCTGCTGCGGGGCGTCAAGCGCGAGGACGT 866 SEQ ID NO: 1040 MAVI-DAS CCAGGGCCAGGCCGGCGACAACGTCGGTCTGCTGGTTCGTGGCATCAAGCGCGAGGACGT 707 SEQ ID NO: 1041 NCTC13129 CTACACCGAGGCTGGCGACAACTGTGGTCTGCTTCTCCGTGGCGTTAAGCGCGAAGACGT 866 SEQ ID NO: 1042 NMEN-MC58 CGAAGGTCAGGCGGGCGACAACGTAGGCGTATTGCTGCGCGGTACCAAACGTGAAGACGT 860 SEQ ID NO: 1043 NMEN-Z2491 CGAAGGTCAAGCAGGCGACAACGTAGGCGTATTGCTGCGCGGTACCAAACGTGAAGACGT 860 SEQ ID NO: 1044 NMEN-DAS CGAAGGTCAGGCGGGCGACAACGTACGCGTATTGCTGCGCGGTACCAAACGTGAAGACGT 701 SEQ ID NO: 1045 MPNE-HF2 TGAACGTGGACAAGTATTAGCTAAACC-TGGTTCAATTAAACCTCACAAACAATTTGAAG 919 SEQ ID NO: 1046 MPNE-M129 GGAACGTGGTCAAGTGTTAGCTAAACC-AGGTTCGATTAAACCGCACAAGAAATTTAAAG 919 SEQ ID NO: 1047 LPNE-Paris GGAGCGTGGACAGGTATTGGCAAAGCC-AGGTACCATCAAGCCACACACCAAGTTTGAAG 938 SEQ ID NO: 1048 LPNE2-DAS GGAGCGTGGACAGGTATTGGCTAAGCC-AGGTACCATCAAGCCACACACCAAGTTTGAAG 808 SEQ ID NO: 1049 LPNE-Philadelphial GGAGCGTGGACAGGTATTGGCGAAGCC-AGGAACCATCAAGCCACACACCAAGTTTGAAG 925 SEQ ID NO: 1050 LPNE-Lens GGAGCGCGGACAGGTATTGGCTAAGCC-AGGAACCATCAAGCCACACACCAAGTTTGAAG 925 SEQ ID NO: 1051 LLON-DAS TGAGCGTGGTCAGGTATTAGCCAAACC-AGGTACAATTAAGCCTCACACTAAATTTGAAG 809 SEQ ID NO: 1052 FNUC-DAS TGAAAGAGGACAAGTTCTTGCTAAACC-AGGAAGTATCCACCCTCATACAAACTTTAAAG 797 SEQ ID NO: 1053 CPNE-CWL029 TGAAAGAGGTATGGTGGTTTGTCAGCC-TAACAGCGTGAAGCCTCATACGAAATTTAAGT 919 SEQ ID NO: 1054 EFAE-DAS CGAACGTGGACAAGTATTAGCTAAACC-AGCTACAATCACTCCACACACAAAATTCAAAG 799 SEQ ID NO: 1055 EFAE-V583 CGAACGTGGACAAGTATTAGCTAAACC-AGCTACAATCACTCCACACACAAAATTCAAAG 922 SEQ ID NO: 1056 SAUR-Mu50 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCAATTACACCACATACTGAATTTAAAG 919 SEQ ID NO: 1057 SAUR-N315 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCAATTACACCACATACTGAATTTAAAG 919 SEQ ID NO: 1058 SAUR-MW2 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCAATTACACCACATACTGAATTCAAAG 919 SEQ ID NO: 1059 SAUR-MSSA476 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCAATTACACCACATACTGAATTCAAAG 919 SEQ ID NO: 1060 SAUR-MRSA252 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCAATTACACCACATACTGAATTCAAAG 919 SEQ ID NO: 1061 SEPI-12228 ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCTATTACACCACACACAAAATTCAAAG 919 SEQ ID NO: 1062 SEPI-RP62A ACAACGTGGTCAAGTATTAGCTGCTCC-TGGTTCTATTACACCACACACAAAATTCAAAG 919 SEQ ID NO: 1063 SMIT-DAS CGAACGTGGACAAGTTATCGCTAAACC-AGGTTCAATCAACCCACACACTAAATTCAAAG 790 SEQ ID NO: 1064 SSAN-DAS CGAACGTGGACAAGTTATCGCTAAACC-AGGTTCAATCAACCCACACACTAAATTCAAGG 831 SEQ ID NO: 1065 SMIT-NCTC12261 CGAACGTGGACAAGTTATTGCTAAACC-AGGTTCAATCAACCCACACACTAAATTCAAAG 931 SEQ ID NO: 1066 SPNE-R6 CGAACGTGGACAAGTTATCGCTAAACC-AGGTTCAATCAACCCACACACTAAATTCAAAG 931 SEQ ID NO: 1067 SPYO-M1GAS CGAACGTGGTCAAGTTATTGCTAAACC-AAGTTCAATCAACCCACACACTAAATTCAAAG 931 SEQ ID NO: 1068 SMUT-DAS CGAACGTGGTCAAGTTCTTGCTAAACC-AGGTTCAATTCACCCACATACTAAATTCAAAG 831 SEQ ID NO: 1069 SMUT-UA159 CGAACGTGGTCAAGTTCTTGCTAAACC-AGGTTCAATTCACCCACATACTAAATTCAAAG 931 SEQ ID NO: 1070 HINF-RdKW20 CGAACGTGGTCAAGTATTAGCGAAACC-AGGTTCAATCACACCACACACTGACTTCGAAT 919 SEQ ID NO: 1071 MCAT-DAS TCAACGTGGTCAAGTATTGGCTAAGCC-AGGTTCAATCACCCCACACACCAAGTTTGATG 776 SEQ ID NO: 1072 BPER-TohamaI CGAGCGTGGCCAGGTGCTGGCCAAGCC-GGGTTCGATCAACCCGCACACGGACTTCACGG 925 SEQ ID NO: 1073 BPAR-12822 CGAGCGTGGCCAGGTGCTGGCCAAGCC-GGGTTCGATCAACCCGCACACGGACTTCACGG 925 SEQ ID NO: 1074 BCEP2-DAS GGAGCGCGGTCAGGTTCTGGCGAAGCC-GGGTTCGATCACGCCGCACACGCACTTCACGG 809 SEQ ID NO: 1075 BPSE-1710b GGAGCGCGGCCAGGTTCTGGCGAAGCC-GGGTTCGATCACGCCGCACACGCACTTCACGG 925 SEQ ID NO: 1076 SMAL-DAS CGAGCGTGGCCAGGTGCTGGCCAAGCC-GGGCACGATCAAGCCGCACACCAAGTTCGAAG 830 SEQ ID NO: 1077 PAER-PA01 AGAGCGTGGCCAGGTACTGGCCAAGCC-GGGCACCATCAAGCCGCACACCAAGTTCGAGT 928 SEQ ID NO: 1078 KPNE-DAS CGAACGTGGTCAGGTACTGGCTAAGCC-GGGCACCATCAACCCGCACACCAAGTTCGAAT 803 SEQ ID NO: 1079 MAVI-K10 CGAGCGCGGTCAGGTCGTCACCAAGCC-CGGCACCACCACGCCGCACACCGAGTTCGAGG 925 SEQ ID NO: 1080 MAVI-paratub CGAGCGCGGTCAGGTCGTCACCAAGCC-CGGCACCACCACGCCGCACACCGAGTTCGAGG 925 SEQ ID NO: 1081 MAISpig-DAS CGAGCGCGGTCAGGTCGTCGTGAAGCC-CGGCACCACCACGCCGCACACCGAGTTCGAGG 820 SEQ ID NO: 1082 MKAN-DAS CGAGCGCGGCCAGGTCGTCATCAAGCC-CGGCACCACAACCCCGCACACCGAGTTCGAGG 826 SEQ ID NO: 1083 MTUB-H37Rv CGAGCGTGGCCAGGTTGTCACCAAGCC-CGGCACCACCACGCCGCACACCGAGTTCGAAG 925 SEQ ID NO: 1084 MTUB-CDC1551 CGAGCGTGGCCAGGTTGTCACCAAGCC-CGGCACCACCACGCCGCACACCGAGTTCGAAG 925 SEQ ID NO: 1085 MAVI-DAS CGAGCGTGGCCAGGTTGTGGTCAAGCC-CGGCACCACCACCCCGCACACCGAGTTCGAGG 766 SEQ ID NO: 1086 NCTC13129 TGAGCGTGGCCAGGTTGTTGTTAAGCC-AGGCGCTTACACCCCTCACACCGAGTTCGAGG 925 SEQ ID NO: 1087 NMEN-MC58 GGAACGCGGTCAGGTATTGGCTAAACC-GGGTACTATCACTCCTCACACCAAATTCAAAG 919 SEQ ID NO: 1088 NMEN-Z2491 AGAGCGTGGTCAAGTATTGGCTAAACC-GGGTACAATCACTCCTCACACCAAGTTCAAAG 919 SEQ ID NO: 1089 NMEN-DAS GGAACGCGGTCAGGTATTGGCCAAACCCGGGTACTATCACTCCTCACACCAAGTTCAAAG 761 SEQ ID NO: 1090 MPNE-HF2 CAGAAATCTATGCTCTTAAAAAAGAAGAAGGTGGAAGACATACTCCAGTATTAAATGGAT 979 SEQ ID NO: 1091 MPNE-M129 CGGAAATCTATGCTTTAAAGAAGGAAGAAGGTGGTCGTCACACCGGTTTCTTAAACGGTT 979 SEQ ID NO: 1092 LPNE-Paris CAGAAGTGTATGTGTTATCCAAGGAAGAAGGCGGACGTCACACACCATTCTTTAATGGAT 998 SEQ ID NO: 1093 LPNE2-DAS CAGAAGTGTATGTATTATCCAAGGAAGAAGGCGGACGTCACACACCATTCTTTAATGGAT 868 SEQ ID NO: 1094 LPNE-Philadelphial CAGAAGTGTATGTATTATCCAAGGAAGAAGGCGGACGTCACACTCCATTCTTTAATGGAT 985 SEQ ID NO: 1095 LPNE-Lens CAGAAGTGTATGTATTATCGAAGGAAGAAGGCGGACGTCACACTCCATTCTTTAATGGAT 985 SEQ ID NO: 1096 LLON-DAS CGGAAGTATACGTGTTATCTAAAGAAGAAGGTGGACGACATACCCCGTTTTTCAATGGAT 869 SEQ ID NO: 1097 FNUC-DAS GTGAAGTCTATGTATTAACTAAAGATGAAGGAGGAAGACACACTCCATTTTTCACAGGAT 857 SEQ ID NO: 1098 CPNE-CWL029 CAGCTGTTTACGTTCTTCAGAAAGAAGAAGGCGGACGTCATAAGCCTTTCTTCAGCGGAT 979 SEQ ID NO: 1099 EFAE-DAS CTGAAGTATACGTATTATCAAAAGAAGAAGGCGGACGTCACACTCCATTCTTCACTAACT 859 SEQ ID NO: 1100 EFAE-V583 CTGAAGTATACGTATTATCAAAAGAAGAAGGCGGACGTCACACTCCATTCTTCACTAACT 982 SEQ ID NO: 1101 SAUR-Mu50 CAGAAGTATACGTATTATCAAAAGACGAAGGTGGACGTCACACTCCATTCTTCTCAAACT 979 SEQ ID NO: 1102 SAUR-N315 CAGAAGTATACGTATTATCAAAAGACGAAGGTGGACGTCACACTCCATTCTTCTCAAACT 979 SEQ ID NO: 1103 SAUR-MW2 CAGAAGTATACGTATTATCAAAAGACGAAGGTGGACGTCACACTCCATTCTTCTCAAACT 979 SEQ ID NO: 1104 SAUR-MSSA476 CAGAAGTATACGTATTATCAAAAGACGAAGGTGGACGTCACACTCCATTCTTCTCAAACT 979 SEQ ID NO: 1105 SAUR-MRSA252 CAGAAGTATACGTATTATCAAAAGACGAAGGTGGACGTCACACTCCATTCTTCTCAAACT 979 SEQ ID NO: 1106 SEPI-12228 CTGAAGTATACGTATTATCTAAAGATGAAGGTGGACGTCACACTCCATTCTTCACTAACT 979 SEQ ID NO: 1107 SEPI-RP62A CTGAAGTATACGTATTATCTAAAGATGAAGGTGGACGTCACACTCCATTCTTCACTAACT 979 SEQ ID NO: 1108 SMIT-DAS GTGAAGTTTACATCCTTACTAAAGAAGAAGGTGGACGTCATACTCCATTCTTCAACAACT 850 SEQ ID NO: 1109 SSAN-DAS GTGAAGTTTATATCCTTACTAAAGAAGAAGGCGGACGTCACACTCCATTCTTCAACAACT 891 SEQ ID NO: 1110 SMIT-NCTC12261 GTGAAGTTTACATCCTTACTAAAGAAGAAGGTGGACGTCACACTCCATTCTTCAACAACT 991 SEQ ID NO: 1111 SPNE-R6 GTGAAGTCTACATCCTTACTAAAGAAGAAGGTGGACGTCACACTCCATTCTTCAACAACT 991 SEQ ID NO: 1112 SPYO-M1GAS GTGAAGTATATATCCTTTCTAAAGACGAAGGTGGACGTCACACTCCATTCTTCAACAACT 991 SEQ ID NO: 1113 SMUT-DAS GTGAAGTTTATATCCTTACTAAAGAAGAAGGTGGACGTCATACACCATTCTTCAATAACT 891 SEQ ID NO: 1114 SMUT-UA159 GTGAAGTTTATATCCTTACTAAAGAGGAAGGTGGACGTCATACACCATTCTTCAATAACT 991 SEQ ID NO: 1115 HINF-RdKW20 CAGAAGTGTACGTATTATCAAAAGATGAAGGTGGTCGTCATACTCCATTCTTCAAAGGTT 979 SEQ ID NO: 1116 MCAT-DAS CAGAAGTATACGTGCTATCAAAAGAAGAAGGTGGTCGTCATACCCCATTCCTAAATGGCT 836 SEQ ID NO: 1117

BPER-TohamaI CCGAGGTGTACATTCTGTCCAAGGAAGAGGGTGGCCGTCACACGCCGTTCTTCAACGGCT 985 SEQ ID NO: 1118 BPAR-12822 CCGAGGTGTACATTCTGTCCAAGGAAGAGGGCGGCCGTCACACGCCGTTCTTCAACGGCT 985 SEQ ID NO: 1119 BCEP2-DAS CCGAAGTGTACGTGCTGAGCAAGGACGAAGGCGGCCGTCACACGCCGTTCTTCAACAACT 869 SEQ ID NO: 1120 BPSE-1710b CTGAAGTGTACGTGCTGAGCAAGGACGAAGGCGGCCGCCACACGCCGTTCTTCAACAACT 985 SEQ ID NO: 1121 SMAL-DAS GCGAAGTGTACGTCCTGTCGAAGGACGAAGGCGGCCGCCACACCCCGTTCTTCAACGGCT 890 SEQ ID NO: 1122 PAER-PA01 GCGAAGTGTACGTGCTGTCCAAGGAAGAAGGTGGTCGTCACACCCCGTTCTTCAAGGGCT 988 SEQ ID NO: 1123 KPNE-DAS CTGAAGTGTACATCCTGTCCAAAGACGAAGGCGGCCGTCATACTCCGTTCTTCAAAGGCT 863 SEQ ID NO: 1124 MAVI-K10 GCCAGGTCTACATCCTGTCCAAGGACGAGGGCGGCCGGCACACGCCGTTCTTCAACAACT 985 SEQ ID NO: 1125 MAVI-paratub GCCAGGTCTACATCCTGTCCAAGGACGAGGGCGGCCGGCACACGCCGTTCTTCAACAACT 985 SEQ ID NO: 1126 MAISpig-DAS GCAGCGTCTACATCCTGTCCAAGGACGAGGGCGGCCGGCACACGCCGTTCTTCAACAACT 880 SEQ ID NO: 1127 MKAN-DAS GCCAGGTTTACATCCTGTCCAAGGACGAGGGTGGCCGGCACACGCCGTTCTTCAACAACT 886 SEQ ID NO: 1128 MTUB-H37Rv GCCAGGTCTACATCCTGTCCAAGGACGAGGGCGGCCGGCACACGCCGTTCTTCAACAACT 985 SEQ ID NO: 1129 MTUB-CDC1551 GCCAGGTCTACATCCTGTCCAAGGACGAGGGCGGCCGGCACACGCCGTTCTTCAACAACT 985 SEQ ID NO: 1130 MAVI-DAS GCAGCGTCTACATCCTGTCCAAGGACGAGGGCGGCCGCCACACGCCGTTCTTCAACAACT 826 SEQ ID NO: 1131 NCTC13129 GCTCTGTCTACGTTCTGTCCAAGGACGAGGGTGGCCGCCACACCCCATTCTTCGACAACT 985 SEQ ID NO: 1132 NMEN-MC58 CAGAAGTATACGTACTGAGCAAAGAAGAGGGTGGTCGTCACACTCCGTTCTTCGCCAACT 979 SEQ ID NO: 1133 NMEN-Z2491 CAGAAGTATACGTACTGAGCAAAGAAGAGGGCGGCCGCCATACCCCGTTCTTCGCCAACT 979 SEQ ID NO: 1134 NMEN-DAS CAGACGTGTACGTACTGAGCAAAGAAGAGGGCGGCCGCCATACTCCGTTCTTCGCCAACT 821 SEQ ID NO: 1135 MPNE-HF2 ATAGACCACAATTCTACTTCAGAACTACTGATGTTACTGGACAAATCACACTTGATAAAG 1039 SEQ ID NO: 1136 MPNE-M129 ACCGTCCCCAATTCTACTTCCGTACTACAGACGTTACTGGTTCGATTTCCCTACCAGAAA 1039 SEQ ID NO: 1137 LPNE-Paris ACCGTCCACAATTCTATTTCAGAACCACTGACGTGACAGGTACTTGTGACTTGCCATCAG 1058 SEQ ID NO: 1138 LPNE2-DAS ACCGTCCACAATTCTATTTCAGAACCACTGACGTAACA---------------------- 906 SEQ ID NO: 1139 LPNE-Philadelphial ACCGTCCACAATTCTATTTCAGAACCACTGACGTGACAGGTACTTGTGACTTGCCATCAG 1045 SEQ ID NO: 1140 LPNE-Lens ACCGTCCACAATTCTATTTCAGAACCACTGACGTGACAGGTACTTGTGACTTGCCATCAG 1045 SEQ ID NO: 1141 LLON-DAS ATAGACCACAGTTTTATTTTAGAACAACAGACGTAACAGGAACTTGTGATTTACCATCTG 929 SEQ ID NO: 1142 FNUC-DAS ACAGACCTCAATTCTATTTTAGAACTACTGATATCACTGGTGCAGTAACTTTACCAGATG 917 SEQ ID NO: 1143 CPNE-CWL029 ACAGACCTCAGTTCTTCTTCCGTACTACAGACGTGACAGGAGTCGTAACTCTTCCTGAAG 1039 SEQ ID NO: 1144 EFAE-DAS ACCGTCCTCAATTCTACTTCCGTACAACAGACGTTACTGGTGTTGTAGAATTGCCAGAAG 919 SEQ ID NO: 1145 EFAE-V583 ACCGTCCTCAATTCTACTTCCGTACAACAGACGTTACTGGTGTTGTAGAATTGCCAGAAG 1042 SEQ ID NO: 1146 SAUR-Mu50 ATCGTCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTTCACTTACCAGAAG 1039 SEQ ID NO: 1147 SAUR-N315 ATCGTCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTTCACTTACCAGAAG 1039 SEQ ID NO: 1148 SAUR-MW2 ATCGTCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTTCACTTACCAGAAG 1039 SEQ ID NO: 1149 SAUR-MSSA476 ATCGTCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTTCACTTACCAGAAG 1039 SEQ ID NO: 1150 SAUR-MRSA252 ATCGTCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTTCACTTACCAGAAG 1039 SEQ ID NO: 1151 SEPI-12228 ATCGCCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTAAACTTACCAGAAG 1039 SEQ ID NO: 1152 SEPI-RP62A ATCGCCCACAATTCTATTTCCGTACTACTGACGTAACTGGTGTTGTAAACTTACCAGAAG 1039 SEQ ID NO: 1153 SMIT-DAS ACCGTCCACAGTTCTACTTCCGTACAACTGACGTAACTGGATCTATCGAACTTCCAGCTG 910 SEQ ID NO: 1154 SSAN-DAS ACCGTCCACAGTTCTACTTCCGTACAACTGACGTTACAGGTTCAATCGAACTTCCAGCAG 951 SEQ ID NO: 1155 SMIT-NCTC12261 ACCGTCCACAATTCTACTTCCGTACTACTGACGTTACAGGTTCAATCGAACTTCCAGCAG 1051 SEQ ID NO: 1156 SPNE-R6 ACCGTCCACAATTCTACTTCCGTACTACTGACGTTACAGGTTCAATCGAACTTCCAGCAG 1051 SEQ ID NO: 1157 SPYO-M1GAS ACCGTCCACAATTCTACTTCCGTACAACTGACGTAACAGGTTCAATCGAACTTCCAGCAG 1051 SEQ ID NO: 1158 SMUT-DAS ATCGTCCACAATTCTACTTCCGTACAACTGACGTAACTGGTTCAATTGAGTTGCCAGCAG 951 SEQ ID NO: 1159 SMUT-UA159 ATCGTCCACAATTCTACTTCCGTACAACTGACGTAACTGGTTCAATTGAGTTGCCAGCAG 1051 SEQ ID NO: 1160 HINF-RdKW20 ACCGTCCACAATTCTATTTCCGTACAACAGACGTGACTGGTACAATCGAATTACCAGAAG 1039 SEQ ID NO: 1161 MCAT-DAS ATCGTCCACAGTTCTACTTCCGTACCACAGACGTAACTGGTGCCATCACCCTACAAGAAG 896 SEQ ID NO: 1162 BPER-TohamaI ATCGTCCGCAGTTCTACTTCCGCACGACGGACGTGACCGGCACGATCGACCTGCCGGCGG 1045 SEQ ID NO: 1163 BPAR-12822 ATCGTCCGCAGTTCTACTTCCGCACGACGGACGTGACCGGCACGATCGACCTGCCGGCGG 1045 SEQ ID NO: 1164 BCEP2-DAS ACCGTCCGCAGTT----------------------------------------------- 882 SEQ ID NO: 1165 BPSE-1710b ACCGTCCGCAGTTCTACTTCCGTACGACGGACGTGACGGGCTCGATCGAGCTGCCGAAGG 1045 SEQ ID NO: 1166 SMAL-DAS ACCGTCCGCAGTTCTACTTCCGCACCACCGACATCACCGGCGCAGCTGCGCTGCCGGAAG 950 SEQ ID NO: 1167 PAER-PA01 ACCGTCCGCAGTTCTACTTCCGTACCACCGATGTGACCGGTAACTGCGAACTGCCGGAAG 1048 SEQ ID NO: 1168 KPNE-DAS ACCGTCCGCAGTTCTACTTCCGTACTACTGACGTGACTGGCACCATCGAACTGCCGGAAG 923 SEQ ID NO: 1169 MAVI-K10 ACCGCCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACGCTGCCGGAGG 1045 SEQ ID NO: 1170 MAVI-paratub ACCGCCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACGCTGCCGGAGG 1045 SEQ ID NO: 1171 MAISpig-DAS ACCGTCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACGCTGCCGGAGG 940 SEQ ID NO: 1172 MKAN-DAS ACCGTCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACGCTGCCGGAGG 946 SEQ ID NO: 1173 MTUB-H37Rv ACCGTCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACACTGCCGGAGG 1045 SEQ ID NO: 1174 MTUB-CDC1551 ACCGTCCGCAGTTCTACTTCCGCACCACCGACGTGACCGGTGTGGTGACACTGCCGGAGG 1045 SEQ ID NO: 1175 MAVI-DAS ACCGCCCGCAGTTCTACTTCCGTACCACGGACGTGACCGGCGTGGTGACCCTCCCCGAG- 885 SEQ ID NO: 1176 NCTC13129 ACCGCCCACAGTTCTACTTCCGCACCACCGACGTTACCGGTGTTGTGAAGCTTCCTGAGG 1045 SEQ ID NO: 1177 NMEN-MC58 ACCGTCCGCAATTCTACTTCCGTACCACCGACGTAACCGGCGCGGTTACTTTGGAAGAAG 1039 SEQ ID NO: 1178 NMEN-Z2491 ACCGTCCCCAATTCTACTTCCGTACCACCGACGTAACCGGCGCGGTTACTTTGGAAGAAG 1039 SEQ ID NO: 1179 NMEN-DAS ACCGTCCGCA-TTCTACTTCCGTACCACCGACGTAACCGGCGCGGTTACTTTGGAAGAAG 880 SEQ ID NO: 1180 MPNE-HF2 GTGTTGAAATGATTAACCCAGGAGATAACACTAAGATTACTGTTGAACTTATTTCTCCAA 1099 SEQ ID NO: 1181 MPNE-M129 ACACCGAAATGGTGCTACCAGGTGACAATACCTCGATTACAGTTGAACTAATTGCACCAA 1099 SEQ ID NO: 1182 LPNE-Paris GAGTTGAAATGGTAATGCCTGGAGATAATGTGCAATTAGTTGTTAGCTTGCATGCTCCGA 1118 SEQ ID NO: 1183 LPNE2-DAS ------------------------------------------------------------ LPNE-Philadelphial GAGTTGAAATGGTAATGCCTGGAGATAATGTGCAATTAGTTGTTAGCTTGCATGCTCCGA 1105 SEQ ID NO: 1184 LPNE-Lens GAGTTGAAATGGTAATGCCTGGAGATAATGTGCAATTAGTTGTTAGCTTGCATGCTCCGA 1105 SEQ ID NO: 1185 LLON-DAS GAGTTGAAATGGTAATGCCTGGAGATAACGTACAGTTG---------------------- 967 SEQ ID NO: 1186 FNUC-DAS GAGTAGAAATGGTTATGCCAG--------------------------------------- 938 SEQ ID NO: 1187 CPNE-CWL029 GAACTGAAATGGTAATGCCTGGAGATAACGTTGAGCTTGATGTTGAGCTCATTGGAACAG 1099 SEQ ID NO: 1188 EFAE-DAS GTACTGAAATGGTAATGCCTGGTGATAACGT----------------------------- 950 SEQ ID NO: 1189 EFAE-V583 GTACTGAAATGGTAATGCCTGGTGATAACGTTGCTATGGACGTTGAATTAATTCACCCAA 1102 SEQ ID NO: 1190 SAUR-Mu50 GTACTGAAATGGTAATGCCTGGTGATAACGTTGAAATGACAGTAGAATTAATCGCTCCAA 1099 SEQ ID NO: 1191 SAUR-N315 GTACTGAAATGGTAATGCCTGGTGATAACGTTGAAATGACAGTAGAATTAATCGCTCCAA 1099 SEQ ID NO: 1192 SAUR-MW2 GTACTGAAATGGTAATGCCTGGTGATAACGTTGAAATGACAGTAGAATTAATCGCTCCAA 1099 SEQ ID NO: 1193 SAUR-MSSA476 GTACTGAAATGGTAATGCCTGGTGATAACGTTGAAATGACAGTAGAATTAATCGCTCCAA 1099 SEQ ID NO: 1194 SAUR-MRSA252 GTACTGAAATGGTAATGCCTGGTGATAACGTTGAAATGACAGTAGAATTAATCGCTCCAA 1099 SEQ ID NO: 1195 SEPI-12228 GTACAGAAATGGTTATGCCTGGCGACAACGTTGAAATGACAGTTGAATTAATCGCTCCAA 1099 SEQ ID NO: 1196 SEPI-RP62A GTACAGAAATGGTTATGCCTGGCGACAACGTTGAAATGACAGTTGAATTAATCGCTCCAA 1099 SEQ ID NO: 1197 SMIT-DAS GAACTGAAATGGTAATGCCTGGTGATAACGTGACTATCGACGTT---------------- 954 SEQ ID NO: 1198 SSAN-DAS GTACTGAAATGGTAATGCCTGGTGATAACGTAACAATCGACGTTGAGT------------ 999 SEQ ID NO: 1199

SMIT-NCTC12261 GTACTGAAATGGTAATGCCTGGTGATAACGTGACAATCGACGTTGAGTTGATCCACCCAA 1111 SEQ ID NO: 1200 SPNE-R6 GTACTGAAATGGTAATGCCTGGTGATAACGTGACAATCGACGTTGAGTTGATTCACCCAA 1111 SEQ ID NO: 1201 SPYO-M1GAS GTACAGAAATGGTTATGCCTGGTGATAACGTGACAATCAACGTTGAGTTGATCCACCCAA 1111 SEQ ID NO: 1202 SMUT-DAS GTACTGAAATGGTTATGCCTGGTGATA--------------------------------- 978 SEQ ID NO: 1203 SMUT-UA159 GTACTGAAATGGTTATGCCTGGTGATAACGTTACTATTGACGTTGAATTGATCCATCCAA 1111 SEQ ID NO: 1204 HINF-RdKW20 GCGTGGAAATGGTAATGCCAGGCGATAACATCAAGATGACAGTAAGCTTAATCCACCCAA 1099 SEQ ID NO: 1205 MCAT-DAS GCACTGAAATGGTTATGCCAGGTGATAACGTTGAGATGAGCGTTGAGCTAATC-ACCCAA 955 SEQ ID NO: 1206 BPER-TohamaI ACAAGGAAATGGTGCTGCCGGGCGACAACGTGTCGATGACCGTCAAGCTGCTGGCCCCGA 1105 SEQ ID NO: 1207 BPAR-12822 ACAAGGAAATGGTGCTGCCGGGCGACAACGTGTCGATGACCGTCAAGCTGCTGGCCCCGA 1105 SEQ ID NO: 1208 BCEP2-DAS ------------------------------------------------------------ BPSE-1710b ACAAGGAAATGGTGATGCCGGGCGACAACGTGTCGATCACGGTGAAGCTGATCGCGCCGA 1105 SEQ ID NO: 1209 SMAL-DAS GCGTCGAAATGGTGATGCCGGGTGACAACGTCAAGATGGTCGTCAC-------------- 996 SEQ ID NO: 1210 PAER-PA01 GCGTAGAGATGGTAATGCCGGGCGACAACATCAAGATGGTTGTCACCCTGATCGCTCCGA 1108 SEQ ID NO: 1211 KPNE-DAS GCGTAGAGATGGTAATGCCGGGCGACAACATCAAAATGG--------------------- 962 SEQ ID NO: 1212 MAVI-K10 GCACCGAGATGGTGATGCCCGGTGACAACACCAACATCTCGGTGAAGCTGATCCAGCCCG 1105 SEQ ID NO: 1213 MAVI-paratub GCACCGAGATGGTGATGCCCGGTGACAACACCAACATCTCGGTGAAGCTGATCCAGCCCG 1105 SEQ ID NO: 1214 MAISpig-DAS GCACCGAAATGGTGATGCCCGGTGACAACACCAACATCTCGGTCAAGCTGATCCAGC--- 997 SEQ ID NO: 1215 MKAN-DAS GCACCGAGATGGTGATGCCCGGTGACA--------------------------------- 973 SEQ ID NO: 1216 MTUB-H37Rv GCACCGAGATGGTGATGCCCGGTGACAACACCAACATCTCGGTGAAGTTGATCCAGCCCG 1105 SEQ ID NO: 1217 MTUB-CDC1551 GCACCGAGATGGTGATGCCCGGTGACAACACCAACATCTCGGTGAAGTTGATCCAGCCCG 1105 SEQ ID NO: 1218 MAVI-DAS ------------------------------------------------------------ NCTC13129 GCACCGAGATGGTCATGCCTGGCGACAACGTCGACATGTCCGTCACCCTGATCCAGCCTG 1105 SEQ ID NO: 1219 NMEN-MC58 GTGTAGAAATGGTAATGCCGGGTGAAAACGTAACCATCACCGTAGAACTGATTGCGCCTA 1099 SEQ ID NO: 1220 NMEN-Z2491 GTGTGGAAATGGTAATGCCGGGCGAGAACGTAACCATCACCGTAGAACTGATTGCGCCTA 1099 SEQ ID NO: 1221 NMEN-DAS GAGTGGAAATGGTAATGCCTGGTGAGAACGTAACCATCACCGTAGA-CTGATTGCGTCTA 939 SEQ ID NO: 1222 MPNE-HF2 TTGCTGTTGAAGAAGGAAGTAAATTCTCAATCCG-TGAAGGTGGAAGAACAGTAGGTGCT 1158 SEQ ID NO: 1223 MPNE-M129 TTGCTTGTGAAAAAGGTAGTAAGTTCTCCATCCG-TGAAGGTGGTCGAACGGTTGGTGCT 1158 SEQ ID NO: 1224 LPNE-Paris TTGCGATGGATGAAGGTTTAAGATTCGCAATTAG-AGAGGGTGGCCGAACTGTTGGCGCC 1177 SEQ ID NO: 1225 LPNE2-DAS ------------------------------------------------------------ LPNE-Philadelphial TTGCGATGGATGAAGGTTTAAGATTCGCAATTAG-AGAGGGTGGCCGAACTGTTGGCGCC 1164 SEQ ID NO: 1226 LPNE-Lens TTGCGATGGATGAGGGTTTAAGATTCGCAATTAG-AGAGGGTGGCCGAACTGTTGGCGCC 1164 SEQ ID NO: 1227 LLON-DAS ------------------------------------------------------------ FNUC-DAS ------------------------------------------------------------ CPNE-CWL029 TTGCTCTTGAAGAAGGAATGAGATTTGCAATTCG-TGAAGGTGGTCGTACTATCGGCGCT 1158 SEQ ID NO: 1228 EFAE-DAS ------------------------------------------------------------ EFAE-V583 TCGCTATCGAAGACGGAACTCGTTTCTCTATTCG-TGAAGGCGGACGTACTGTAGGTTCA 1161 SEQ ID NO: 1229 SAUR-Mu50 TCGCGATTGAAGACGGTACTCGTTTCTCAATCCG-CGAAGGTGGACGTACTGTAGGATCA 1158 SEQ ID NO: 1230 SAUR-N315 TCGCGATTGAAGACGGTACTCGTTTCTCAATCCG-CGAAGGTGGACGTACTGTAGGATCA 1158 SEQ ID NO: 1231 SAUR-MW2 TCGCGATTGAAGACGGTACTCGTTTCTCAATCCG-TGAAGGTGGACGTACTGTAGGATCA 1158 SEQ ID NO: 1232 SAUR-MSSA476 TCGCGATTGAAGACGGTACTCGTTTCTCAATCCG-TGAAGGTGGACGTACTGTAGGATCA 1158 SEQ ID NO: 1233 SAUR-MRSA252 TCGCGATTGAAGACGGTACTCGTTTCTCAATCCG-TGAAGGTGGACGTACTGTAGGATCA 1158 SEQ ID NO: 1234 SEPI-12228 TCGCTATCGAAGACGGAACTCGTTTCTCAATTCG-TGAAGGTGGACGTACTGTTGGATCA 1158 SEQ ID NO: 1235 SEPI-RP62A TCGCTATCGAAGACGGAACTCGTTTCTCAATTCG-TGAAGGTGGACGTACTGTTGGATCA 1158 SEQ ID NO: 1236 SMIT-DAS ------------------------------------------------------------ SSAN-DAS ------------------------------------------------------------ SMIT-NCTC12261 TCGCCGTAGAACAAGGTACTACATTCTCTATCCG-TGAGGGTGGACGTACTGTTGGTTCA 1170 SEQ ID NO: 1237 SPNE-R6 TCGCCGTAGAACAAGGTACTACATTCTCTATCCG-TGAGGGTGGACGTACTGTTGGTTCA 1170 SEQ ID NO: 1238 SPYO-M1GAS TCGCCGTAGAACAAGGTACTACTTTCTCAATCCG-TGAAGGTGGACGTACTGTTGGTTCA 1170 SEQ ID NO: 1239 SMUT-DAS ------------------------------------------------------------ SMUT-UA159 TCGCTGTTGAACAAGGTACTACTTTCTCTATTCG-TGAAGGTGGACGTACTGTTGGTTCT 1170 SEQ ID NO: 1240 HINF-RdKW20 TTGCGATGGATCAAGGTTTACGTTTCGCAATCCG-TGAAGGTGGCCGTACAGTAGGTGCA 1158 SEQ ID NO: 1241 MCAT-DAS TCGCATGGACA------------------------------------------------- 966 SEQ ID NO: 1242 BPER-TohamaI TCGCCATGGAAGAAGGTCTGCGTTTCGCCATCCG-TGAAGGCGGTCGTACCGTCGGCGCC 1164 SEQ ID NO: 1243 BPAR-12822 TCGCCATGGAAGAAGGTCTGCGTTTCGCCATCCG-TGAAGGCGGTCGTACCGTCGGCGCC 1164 SEQ ID NO: 1244 BCEP2-DAS ------------------------------------------------------------ BPSE-1710b TCGCGATGGAAGAAGGTCTGCGCTTCGCGATCCG-CGAAGGCGGTCGCACCGTCGGCGCC 1164 SEQ ID NO: 1245 SMAL-DAS ------------------------------------------------------------ PAER-PA01 TCGCCATGGAAGATGGCCTGCGCTTCGCGATCCG-CGAAGGCGGCCGTACCGTTGGCGCC 1167 SEQ ID NO: 1246 KPNE-DAS ------------------------------------------------------------ SEQ ID NO: 1247 MAVI-K10 TCGCCATGGACGAGGGTCTGCGGTTCGCCATCCG-CGAGGGTGGTCGCACCGTCGGCGCC 1164 SEQ ID NO: 1248 MAVI-paratub TCGCCATGGACGAGGGTCTGCGGTTCGCCATCCG-CGAGGGTGGTCGCACCGTCGGCGCC 1164 SEQ ID NO: 1249 MAISpig-DAS ------------------------------------------------------------ MKAN-DAS ------------------------------------------------------------ MTUB-H37Rv TCGCCATGGACGAAGGTCTGCGTTTCGCGATCCG-CGAGGGTGGCCGCACCGTGGGCGCC 1164 SEQ ID NO: 1250 MTUB-CDC1551 TCGCCATGGACGAAGGTCTGCGTTTCGCGATCCG-CGAGGGTGGCCGCACCGTGGGCGCC 1164 SEQ ID NO: 1251 MAVI-DAS ------------------------------------------------------------ NCTC13129 TCGCTATGGATGAGGGCCTGCGCTTCGCTATCCG-CGAGGGCTCCCGCACCGTCGGCGCT 1164 SEQ ID NO: 1252 NMEN-MC58 TCGCTATGGAAGAAGGCCTGCGCTTTGCGATTCG-CGAAGGCGGCCGTACCGTGGGTGCC 1158 SEQ ID NO: 1253 NMEN-Z2491 TCGCTATGGAAGAAGGTTTGCGCTTTGCGATTCG-CGAAGGCGGCCGTACCGTGGGTGCC 1158 SEQ ID NO: 1254 NMEN-DAS TCGCTATGGAAGAG---CTGCGCTT-GCGTCGTGTCGCGCGTGTCCAT------------ 983 SEQ ID NO: 1255 MPNE-HF2 GGTACAGTAACTAAAGTTATTAAGTAA 1185 SEQ ID NO: 1256 MPNE-M129 GGTTCAGTCACGGAAGTGCTTGAATAG 1185 SEQ ID NO: 1257 LPNE-Paris GGTGTAGTCGCTAAAATAATCGAGTAA 1204 SEQ ID NO: 1258 LPNE2-DAS --------------------------- LPNE-Philadelphial GGTGTAGTCGCTAAAATAATCGAGTAA 1191 SEQ ID NO: 1259 LPNE-Lens GGTGTAGTCGCTAAAATAATCGAGTAA 1191 SEQ ID NO: 1260 LLON-DAS --------------------------- FNUC-DAS --------------------------- CPNE-CWL029 GGAACGATTTCAAAGATCAATGCTTAA 1185 SEQ ID NO: 1261 EFAE-DAS --------------------------- EFAE-V583 GGCGTTGTTACTGAAATCGTTAAATAA 1188 SEQ ID NO: 1262 SAUR-Mu50 GGCGTTGTTACTGAAATCATTAAATAA 1185 SEQ ID NO: 1263 SAUR-N315 GGCGTTGTTACTGAAATCATTAAATAA 1185 SEQ ID NO: 1264 SAUR-MW2 GGCGTTGTTACTGAAATCATTAAATAA 1185 SEQ ID NO: 1265 SAUR-MSSA476 GGCGTTGTTACTGAAATCATTAAATAA 1185 SEQ ID NO: 1266 SAUR-MRSA252 GGCGTTGTTACTGAAATCATTAAATAA 1185 SEQ ID NO: 1267 SEPI-12228 GGCGTTGTAACTGAAATCTTTGAATAA 1185 SEQ ID NO: 1268 SEPI-RP62A GGCGTTGTAACTGAAATCTTTGAATAA 1185 SEQ ID NO: 1269 SMIT-DAS --------------------------- SSAN-DAS --------------------------- SMIT-NCTC12261 GGTATGGTTACAGAAATCGAAGCTTAA 1197 SEQ ID NO: 1270 SPNE-R6 GGTATGGTTACAGAAATCGAAGCTTAA 1197 SEQ ID NO: 1271 SPYO-M1GAS GGTATCGTTTCAGAAATCGAAGCTTAA 1197 SEQ ID NO: 1272 SMUT-DAS --------------------------- SMUT-UA159 GGTATCGTTTCAGAAATCGAAGCTTAA 1197 SEQ ID NO: 1273 HINF-RdKW20 GGCGTTGTTGCGAAAATCATCAAATAA 1185 SEQ ID NO: 1274

MCAT-DAS --------------------------- BPER-TohamaI GGCGTCGTCGCCAAGATCATCAAGTAA 1191 SEQ ID NO: 1275 BPAR-12822 GGCGTCGTCGCTAAGATCATCAAGTAA 1191 SEQ ID NO: 1276 BCEP2-DAS --------------------------- BPSE-1710b GGCGTCGTCGCCAAGATCATCGAGTAA 1191 SEQ ID NO: 1277 SMAL-DAS --------------------------- PAER-PA01 GGCGTGGTTGCCAAGATCATCGAGTAA 1194 SEQ ID NO: 1278 KPNE-DAS --------------------------- SEQ ID NO: 1279 MAVI-K10 GGCCGGGTCGTCAAGATCATCAAGTAG 1191 SEQ ID NO: 1280 MAVI-paratub GGCCGGGTCGTCAAGATCATCAAGTAG 1191 SEQ ID NO: 1281 MAISpig-DAS --------------------------- MKAN-DAS --------------------------- MTUB-H37Rv GGCCGGGTCACCAAGATCATCAAGTAG 1191 SEQ ID NO: 1282 MTUB-CDC1551 GGCCGGGTCACCAAGATCATCAAGTAG 1191 SEQ ID NO: 1283 MAVI-DAS --------------------------- NCTC13129 GGTCGCGTTACCAAGATCATCAAGTAA 1191 SEQ ID NO: 1284 NMEN-MC58 GGCGTGGTTTCTTCTGTTATCGCTTAA 1185 SEQ ID NO: 1285 NMEN-Z2491 GGCGTGGTTTCTTCTGTTATCGCTTAA 1185 SEQ ID NO: 1286 Abbreviations used in Table 1 MPNE--Mycoplasma pneumoniae LPNE--Legionella pneumophila LLON--Legionella longbeachiae FNUC--Fusobacterium nucleatum CPNE--Chlamydophila pneumoniae EFAE--Enterococcus faecalis SAUR--Staphylococcus aureus SEPI--Staphylococcus epidermidis SMIT--Streptococcus mitis SSAN--Streptococcus sanguis SPNE--Streptococcus pneumoniae SPYO--Streptococcus pyogenes SMUT--Streptococcus mutans HINF--Haemophilus influenzae MCAT--Moraxella catarrhalis BPER--Bordetella pertussis BPAR--Bordetella parapertussis BCEP--Burkholderia cepacia BPSE--Burkholderia pseudomallei SMAL--Stenotrophomonas maltophiliia PAER--Pseudomonas aeruginosa KPNE--Klebsiella pneumoniae MAVI--Mycobacterium avium MAIS--Mycobacterium intracellulare MKAN--Mycobacterium kansasii MTUB--Mycobacterium tuberculosis CDIP--Corynebacterium diptheriae NMEN--Neisseria meningitidis

bacteria, intestinal flora, monerans, monerons, microbes, pathogens, pilus, protists, protistans, protoctists, viruses, rickettsieae, protozoans, algae spirillum and fungi.

[0113] In some embodiments, the target micro-organism is a prokaryotic micro-organism. Examples of prokaryotic micro-organisms include Bordotella pertussis, Haemophilus influenzae, Legionella pneumophila, Mycoplasma pneumoniae, Staphylococcus aureus, Myobacterium tuberculosis, Escherichia coli, Streptococcus pyogenes, Burkholderia cepacia, Corynebacterium, Chlamydophila pneumoniae, Enterococcus faecalis, Fusobacterium nucleatum, Klebsiella pneumoniae, Legionella longbeachiae, Moraxella catarrhalis, Neisseria meningitidis, Pseudomonas aeruginosa, Staphylococcus epidermidis, Stenotrophomonas maltophilia, Streptococcus pneumoniae, Streptococcus mutans, Streptococcus sanguis, and Serratia marcescens.

[0114] As shown in Table 2, the bacteria referred to above display a range of characteristics.

TABLE-US-00015 TABLE 2 Gram positive bacterial Gram negative bacterial species species Aerobic bacilli Aerobic bacilli Corynebacterium diphtheriae Bordetella pertussis Chlamydophila pneumoniae Haemophilus influenzae Serratia marcescens Moraxella catarrhalis Legionella pneumophila Legionella longbeachiae Mycoplasma pneumoniae Klebsiella pneumoniae Burkholderia cepacia Stenotrophomonas maltophilia Pseudomonas aeruginosa Aerobic cocci Aerobic cocci Staphylocuccus aureus Neisseria meningitidis Staphylococcus epidermidis Streptococcus pneumoniae Streptococcus pyogenes Streptpcoccus mutans Streptococcus sanguis Enterococcus faecalis Anaerobic bacilli Fusobacterium nucleatum Mycobacterium tuberculosis

[0115] The methods of the invention for identifying micro-organisms may be used in a variety of fields including, but not limited to, human medicine, epidemiology, drug development, veterinary medicine, agriculture, the environment, food science, and industrial microbiology. For example, micro-organism identification may be used to determine the identity of a micro-organism found in a patient suffering from an infectious disease. Micro-organism identification may also be used to monitor food safety by testing for pathogens. Similarly, plants may be checked to determine if they harbour phytopathogenic bacteria. Further, the methods of the present invention may be used to identify drug resistant bacteria including antibiotic resistant strains of bacteria.

[0116] One method of the present invention for identifying a target microorgansim in a test sample comprises contacting the test sample or a product of the amplification process described supra, with a probe derived from the tuf gene variable region for a time and under conditions sufficient for hybridization to take place.

[0117] The term "probe" as used herein is interchangeably used with the terms "oligonucleotide probe" or "hybridization probe" and refers to a short span of contiguous nucleotides, preferably between 10 and 50 nucleotides, that are complementary to at least a part of a tuf gene variable region from target microorganism, such that it is capable of specifically binding to a polynucleic acid as defined herein from the target microorganism. The design, use and labelling of probes is described in Keller et al., DNA Probes, pp. 149-213 (Stockton Press, 1989).

[0118] The terms "specific binding" or "specifically binding" refers to that interaction between a probe of the present invention and the corresponding polynucleic acid from a target microorganism.

[0119] As used herein the term "contacting" means to bring the test sample or amplification product into physical proximity with a probe derived from the tuf gene variable region such that, if other conditions are suitable, hybridization can take place. The contacting may be direct or indirect. For example, the test sample may directly contact the probe such that hybridisation can take place. Alternatively, the sample may hybridise with another molecule (eg another nucleic acid molecule) which in turn hybridises with the probe derived from a tuf gene variable region.

[0120] "Hybridisation" is used herein to denote the pairing of complementary nucleotide sequences to produce a DNA-DNA hybrid or a DNA-RNA hybrid. Complementary base sequences are those sequences that are related by the base pairing rules. In DNA, A pairs with T and C pairs with G. In RNA U pairs with A and C pairs with G. In this regard, the terms "match" and "mismatch" as used herein refer to the hybridisation potential of paired nucleotides in complementary nucleic acid strands. Matched nucleotides hybridise efficiently, such as the classical A-T and G-C pair mentioned above. Mismatches are combinations of nucleotides that do not hybridise efficiently.

[0121] Defining appropriate hybridisation conditions is within the skill of the art. See eg., Sambrook et al., supra. However, ordinarily, "stringent conditions" for hybridisation or annealing of probes are those that

[0122] (1) employ low ionic strength and high temperature for washing, for example, 0.015M NaCl/0.0015M sodium citrate/0.1% sodium dodecyl sulfate (SDS) at 50° C., or

[0123] (2) employ during hybridisation a denaturing agent such as formamide, for example, 50% (vol/vol) formamide with 0.1% bovine serum albumin/0.1% Ficoll/0.1% polyvinylpyrrolidone/50 mM sodium phosphate buffer at pH 6.5 with 750 mM NaCl, 75 mM sodium citrate at 42° C.

[0124] An example of medium stringency conditions for hybridisation is the use of 50% formamide, 5×SSC (0.75M NaCl, 0.075M sodium citrate), 50 mM sodium phosphate (pH 6.8), 0.1% sodium pyrophosphate, 5×Denhardt's solution, sonicated salmon sperm DNA (50 μg/mL), 0.1% SDS, and 10% dextran sulfate at 42° C., with washes at 42° C. in 0.2×SSC and 0.1% SDS.

[0125] Suitable hybridisation and washing conditions depend on specific applications. The higher the degree of similarity between two micro-organisms that need to be differentiated, the higher the stringency of hybridisation and washing conditions should be. For example, when an application requires differentiating micro-organisms on the genus level, hybridisation and washing conditions of relatively low stringency may be all that is necessary. However, when differentiating between micro-organisms on the species level, wherein the micro-organism share a higher degree of similarity, hybridisation and washing conditions of higher stringency are required. Further, when differentiating between micro-organisms on the strain level wherein the micro-organisms share an even higher degree of similarity, hybridisation and washing conditions of even higher stringency are required.

[0126] In some embodiments, the step of contacting the test sample comprises hybridization with at least a portion of a tuf gene variable region with a set of probes comprising at least one probe selected from the group consisting of SEQ ID NOs:12 to 57, 208 to 209 and 210.

[0127] In other embodiments, the at least one probe is selected from the group consisting of SEQ ID NOs:12 to 79, 208 to 209 and 210. In other embodiments, the at least one probe is selected from the group consisting of SEQ ID NOs:12 to 392 and 393.

[0128] In some embodiments, the target microorganism is selected from the group consisting of Bordetella species, Chlamydophila species, Haemophilus species, Legionella species, Mycoplasma species, Mycobacterium species, Staphylococcus species, Streptococcus species, Pseudomonas species, Moraxella species and Fusobacterium species, Stenotrophomonas species, Burkholderi species, Enterococcus species, Corynebacterium species and Neisseria species, wherein the probe is selected from the group consisting of:

for Haemophilus influenzae:

TABLE-US-00016 TATTATCCGTACAGGTGATGAAGTAGAAA; (SEQ ID NO.: 12) AAAGATACAGCGAAAACTACTGTAACG; (SEQ ID NO.: 13) CATCGGTGCATTATTACGTGGTAC; (SEQ ID NO.: 14) CATACTCCATTCTTCAAAGGTTACCG; (SEQ ID NO.: 15) TGACTGGTACAATCGAATTACCAGAA; (SEQ ID NO.: 16) CCGTAAATTACTTGACGAAGGTCG; (SEQ ID NO.: 17) ACTTCGAATC AGAAGTGTAC; (SEQ ID NO.: 64) CAAACGTGAA GAAATCGAAC; (SEQ ID NO.: 65) CGATAACATC AAGATGACAG T; (SEQ ID NO.: 66)

for Moraxella catarrhalis:

TABLE-US-00017 TGAGCGTGACATCGATAAGTCA; (SEQ ID NO.: 18) CAGGCATTATTAAAGTTGGTGATGAAATT; (SEQ ID NO.: 19) AAACCAACTACTAAAACCACTTGTACTG; (SEQ ID NO.: 20) CGTAAGCTGCTAGACGAAGGT; (SEQ ID NO.: 21) TACCCCATTCCTAAATGGCTATCG; (SEQ ID NO.: 22) TAACTGGTGCCATCACCCTAC; (SEQ ID NO.: 23) AGTTTGATGCAGAAGTATACG (SEQ ID NO.: 208) TATCCTACTACGTGGTACTAA (SEQ ID NO.: 209) ATAACGTTGAGATGAGCG (SEQ ID NO.: 210)

for Enterococcus faecalis:

TABLE-US-00018 AAGGCGACGAGTCTTATGAAGA; (SEQ ID NO.: 24) AATTAATGGCTGCAGTTGACGAAT; (SEQ ID NO.: 25) GAAGTTCGCGTTGGTGACG; (SEQ ID NO.: 26) GACGAAACATCTAAAACAACTGTTACAG; (SEQ ID NO.: 27) TGGTGTTGTAGAATTGCCAGAAG; (SEQ ID NO.: 28) TAAACCAGCTACAATCACTCCACA; (SEQ ID NO.: 29)

for Staphylococcus aureus:

TABLE-US-00019 GTTGACATGGTTGACGATGAAGAATTA; (SEQ ID NO.: 30) CTTAGAATTAATGGAAGCTGTAGATACTTACA; (SEQ ID NO.: 31) ATCATCGGTTTACATGACACATCTAAAA; (SEQ ID NO.: 32) CACCACATACTGAATTTAAAGCAGAAGTA; (SEQ ID NO.: 33) CATTCTTCTCAAACTATCGTCCACAA; (SEQ ID NO.: 34) CTGGTGTTGTTCACTTACCAGAAG; (SEQ ID NO.: 35) TACTGAAATGGTAATGCCTGGTGATA; (SEQ ID NO.: 36) CCAATCGCGATTGAAGACGG; (SEQ ID NO.: 37) CTGGTTCAGCATTAAAAGCTTTAGAAG; (SEQ ID NO.: 38) TGACAACATTGGTGCATTATTACGT; (SEQ ID NO.: 39) TGTTACAGGTGTTGAAATGTTCCG; (SEQ ID NO.: 40) GTATTATCAAAAGACGAAGGTGGACG; (SEQ ID NO.: 41) GCGATGCTCAATACGAAGAAAAAATC; (SEQ ID NO.: 42) TGAATTCAAA GCAGAAGTAT AC; (SEQ ID NO.: 76) ATTATTACGT GGTGTTGCTC; (SEQ ID NO.: 77) GTGATAACGT TGAAATGACA G; (SEQ ID NO.: 78)

for Staphylococcus epidermidis:

TABLE-US-00020 TAGACTTAATGCAAGCAGTTGATGATTAC; (SEQ ID NO.: 43) CCACACACAAAATTCAAAGCTGAAG; (SEQ ID NO.: 44) CTGGTGTTGTAAACTTACCAGAAGG; (SEQ ID NO.: 45) GAAATGGTTATGCCTGGCGAC; (SEQ ID NO.: 46) CTGGTTCTGCATTAAAAGCATTAGAAG; (SEQ ID NO.: 47) TGACAACATCGGTGCTTTATTACG; (SEQ ID NO.: 48) CTGTTACTGGTGTAGAAATGTTCCG; (SEQ ID NO.: 49) CGTATTATCTAAAGATGAAGGTGGACG; (SEQ ID NO.: 50)

for Pseudomonas aeruginosa:

TABLE-US-00021 AAGTTCGAGTGCGAAGT; (SEQ ID NO.: 51) AAGGCGTAGAGATGGTAAT; (SEQ ID NO.: 52) TTCTTCAAGGGCTACCG; (SEQ ID NO.: 53) ATCATCAAGGTCCAGGAAGAAGT; (SEQ ID NO.: 54) ACCAAGACTACCTGCACCG; (SEQ ID NO.: 55) TGTACGTGCTGTCCAAGGAA; (SEQ ID NO.: 56) CCGGTAACTGCGAACTGC; (SEQ ID NO.: 57) CACGTTGACTGCCCCGGTCACGC; (SEQ ID NO.: 85) ACGCCTTCCGGCAGTTCGCAGTTAC; (SEQ ID NO.: 86) ATCGGTCACGTTGACCATGGCA; (SEQ ID NO.: 87) GCCGCCTTCGCGGATCGCGAA; (SEQ ID NO.: 88)

for Bordetella pertussis:

TABLE-US-00022 GTACATTCTG TCCAAGGAAG; (SEQ ID NO.: 58) GACAACGTGG GTATCTTG; (SEQ ID NO.: 59) GACAAGGAAA TGGTGCT; (SEQ ID NO.: 60)

for Chlamydophila pneumoniae:

TABLE-US-00023 AATTTAAGTC AGCTGTTTAC G; (SEQ ID NO.: 61) GAGGTATTGG AAAGAACGAT; (SEQ ID NO.: 62) ATAACGTTGA GCTTGATGTT; (SEQ ID NO.: 63)

for Legionella pneumophila:

TABLE-US-00024 AGTTTGAAGC AGAAGTGTAT; (SEQ ID NO.: 67) TGTTATTACG AGGTACGAAG; (SEQ ID NO.: 68) AGATAATGTG CAATTAGTTG TTA; (SEQ ID NO.: 69)

for Mycoplasma pneumoniae:

TABLE-US-00025 GAAATTTAAA GCGGAAATCT ATG; (SEQ ID NO.: 70) GAACGTGGTC AAGTGTTAG; (SEQ ID NO.: 71) GACAATACCT CGATTACAGT; (SEQ ID NO.: 72)

for Mycobacterium tuberculosis

TABLE-US-00026 AACATCTCGG TGAAGTTGAT; (SEQ ID NO.: 73) TGACAACACC AACATCTC; (SEQ ID NO.: 74) ACGAAGGTCT GCGTTT; (SEQ ID NO.: 75)

for Streptococcus pneumoniae

TABLE-US-00027 AATTCAAAGG TGAAGTCTAC A; (SEQ ID NO.: 79) CAACGTGATG AAATCGAAC; (SEQ ID NO.: 80) GACAATCGAC GTTGAGTT; (SEQ ID NO.: 81)

for Streptococcus pyogenes

TABLE-US-00028 CAAAGGTGAA GTATATATCC TTTC; (SEQ ID NO.: 82) CAACGTGACG AAATCGAA; (SEQ ID NO.: 83) CGTGACAATC AACGTTGA; (SEQ ID NO.: 84)

and combinations thereof.

[0129] Once hybridization is believed to have taken place then any hybrids formed are detected. The person skilled in the art would be readily able to detect hybridisation between the probes of the invention and the polynucleic acid of the invention. For example, where neither the polynucleic acid or probe is labelled, hybridisation can be detected using a DNA intercalating dye such as ethidium bromide, SYBR®Green (Applied Biosystems, Scoresby VIC, Australia), or SYTOX Orange (Invitrogen, Mount Waverley VIC, Australia). These dyes bind efficiently to double stranded DNA. Therefore when hybrids between the target polynucleic acid and the probe nucleotide sequence are formed, staining with a dye as described above will facilitate detection of the resulting hybrids.

[0130] In some preferred embodiments of the present invention, a polynucleic acid derived from a test sample or a probe is labelled to facilitate hybridisation detection. Methods and materials that can be used to label DNA or RNA molecules are known in the art. In the examples below, a method of labelling the DNA with Cy3 or Cy5 is described. However, other known labelling materials and methods may also be used. For example, other Cy dyes such as Cy3.5 and Cy5.5, Alexa fluorescent dyes and radioactive isotopes such as ³²P and ³⁵S and the like can also be used to label the whole genomic DNA to facilitate the detection of hybridisation. Furthermore, a two-colour fluorescent labelling strategy may be used in the present invention. The strategy is described in Ramsay, 1998, Nat. Biotech., 16:40-44) and Shalon et al., 1996, Genome Res., 6:639-645, both of which are incorporated by reference in their entirety. Such multiple-colour hybridisation detection strategy minimises variations resulting from inconsistent experimental conditions and allows direct and quantitative comparison of target abundance among different samples (see Ramsay, 1998, supra and Shalon et al., 1996, supra). The label is one that preferably does not provide a variable signal, but instead provides a constant and reproducible signal over a given period of time.

[0131] In some embodiments, the preferred method of contacting probes and test samples and detecting microorganisms is by using a microarray. A "microarray" is typically a 2-dimensional array upon which two or more probes of the invention have been deposited. In some embodiments there are at least 3 positions on the microarray containing a probe each having a different sequence of the invention. This has the advantage of minimising false positives.

[0132] Another method of detecting the presence of polynucleic acid from target microorganisms is specific nucleic acid microarrays and microchip technology. A microarray is a tool for detecting gene or nucleic acid sequence presence and typically consists of a small membrane or glass slide onto which samples of many probes have been arranged in a regular pattern.

[0133] For example, oligonucleotide probes for microorganism polynucleic acid disclosed herein can be deposited at predetermined locations on a glass slide. Test samples or polynucleic acid isolated therefrom can be added to the probes under conditions which allow hybridization or binding between the probes and polynucleic acid if present in the test sample. Alternatively, polynucleic acid from a test sample may be applied to the slide before adding probes for polynucleic acid disclosed herein. Binding between the probes and polynucleic acid can be detected by any means known in the art and specific binding between the polynucleic acid and a probe indicates the polynucleic acid is present in the test sample.

[0134] The methodology of hybridisation of polynucleic acids and microarray technology is well known in the art. For example, the specific preparation of polynucleic acids for hybridisation and probes, slides, and hybridisation conditions are provided in PCT/US01/10482, herein incorporated by reference.

[0135] Microarray technology allows for the measurement of thousands of genes or polynucleic acids simultaneously thereby presenting a powerful tool for identifying the presence of microorganisms. Two microarray technologies are currently in wide use. The first are cDNA arrays and the second are oligonucleotide arrays. Although differences exist in the construction of these chips, essentially all downstream data analysis and output are the same. The product of these analyses are typically measurements of the intensity of the signal received from a labelled probe used to detect a polynucleic acid from the test sample that hybridizes to a polynucleic acid at a known location on the microarray. Typically, the signal intensity is proportional to the polynucleic acid quantity. A large number of such techniques are available and useful. Preferred methods can be found in U.S. Pat. No. 6,271,002 to Linsley et al.; U.S. Pat. No. 6,218,122 to Friend et al.; U.S. Pat. No. 6,218,114 to Peck et al.; and U.S. Pat. No. 6,004,755 to Wang et al., the disclosure of each of which is incorporated herein by reference.

[0136] In a preferred method, biotinylated probes are prepared and hybridized to a microarray such as Affymetrix HG-U133A oligonucleotide microarrays (Affymetrix, Santa Clara, Calif.) by methods such as those described in Hoffmann et al., 2005, Mol Biotechnol., 29:31-8. Array images can then be reduced to intensity values for each probe (CEL files) using, for example, Affymetrix MAS 5.0 software. Expression measures are extracted using robust multi-array analysis (RMA) for example as described in Irizarry et al., 2003, Nucleic Acids Res., 31:e15 and Dallas et al., 2005, BMC Genomics., 6:59.

[0137] Once a microorganism(s) has been detected using the invention described herein, an appropriate diagnosis, prognosis or treatment might be effected. Accordingly, the invention further provides a method for the prognosis, diagnosis, prevention, or treatment in a subject of a disease, comprising the detection of hybridisation between a polynucleic acid in a test sample and a probe derived from a tuf gene variable region. Detecting hybridisation between a nucleic acid molecule in a sample and variable region of a gene enables identification of a micro-organism in the sample. This information can be used to determine whether the disease is caused by a pathogenic micro-organism, and hence the prognosis, diagnosis, prevention, or treatment for the disease.

[0138] As used herein "prognosis" means a prediction of the course and outcome of a disease or the likelihood of a subject developing a disease.

[0139] As used herein "diagnosis" means the process of identifying a disease, such as by its symptoms, laboratory tests (including genotypic tests), and physical findings.

[0140] As used herein "prevention" means any prevention of a disease in a subject and includes preventing the disease from occurring in a subject that may be predisposed to the disease, but has not yet been diagnosed as having it. The effect may be prophylactic in terms of completely or partially preventing the disease or sign or symptom thereof.

[0141] As used herein "treatment" or "treating" means any treatment of a disease in a subject by administering a medicament to the subject following the detection of a particular microorganism. "Treatment" and "treating" includes: (a) inhibiting the disease, i.e., arresting its development; or (b) relieving or ameliorating the symptoms of the disease, i.e., cause regression of the symptoms of the disease. The effect may be therapeutic in terms of a partial or complete cure of the disease.

[0142] Methods of the invention can be used in the prognosis, diagnosis, prevention, or treatment of any subject, such as an animal or plant, as all animals and plants are infected by micro-organisms and are subject to diseases and disorders caused by micro-organisms.

[0143] As used herein an "animal" means any animal, such as a human or a mammal of economical importance and/or social importance to humans, for instance, carnivores other than humans (such as cats and dogs), swine (pigs, hogs, and wild boars), ruminants (such as cattle, oxen, sheep, giraffes, deer, goats, bison, and camels), and horses. Also provided is the treatment of birds, including the treatment of those kinds of birds that are endangered, kept in zoos, as well as fowl, and more particularly domesticated fowl, eg., poultry, such as turkeys, chickens, ducks, geese, guinea fowl, and the like, as they are also of economical importance to humans. Thus, provided is the treatment of livestock, including, but not limited to, domesticated swine (pigs and hogs), ruminants, horses, poultry, and the like. The term does not denote a particular age. Thus, both adult and newborn subjects are intended to be covered.

[0144] As used herein a "plant" includes any member of the plant kingdom including, but not limited to, eukaryotic algae, mosses, club mosses, ferns, angiosperms, gymnosperms, and lichens (which contain algae) including any parts (eg pollen, seeds, cells, tubers, stems) thereof, and any cellular components (eg plasmids, ribosomes, etc.) thereof.

[0145] "Disease" as used herein is a general term used to refer to any departure from health in which a subject suffers.

[0146] In some embodiments the disease is one associated with pathogens (including animal pathogens) and in particular infectious diseases, respiratory infections, including, pneumonia (including community acquired pneumonia), whooping cough, meningitis, typhus, tuberculosis, diptheria, typhoid fever and bacterial diarrhoea; gastrointestinal tract infections, including gastroenteritis; dermal infections; genital tract infections; urinary tract infections; nosocomial infections; typhoid fever; botulism; strep throat; rheumatic fever; syphilis, cystitis; kidney infection; folliculitis; furunculosis (boils); impetigo (school sore); methicillin resistant Staphylococcus aureus; staphylococcal scalded skin syndrome; toxic shock syndrome; cellulitis, erysipelas; necrotising fascilitis; scarlet fever; wound infections ie. dermatitis and scabies.

[0147] A medical or veterinary practitioner, after being provided with the results of the above method may prescribe appropriate treatment according to his or her knowledge and skill. However, in an alternative embodiment, a computer software program may be provided to advise on the appropriate treatment of the patient, once the identification of the micro-organism has taken place.

[0148] Embodiments of the present invention may also be conveniently provided in kits. The kits of the invention may comprise reagents such as probes or primers, reference polynucleic acids, buffers, enzymes and the like. The kits of the invention may also comprise instructions for carrying out the methods of the present invention. Such instructions may take the form of package inserts, or labels, or referrals to other sources such as books, journals, websites, and compact discs.

[0149] The invention will now be further described by way of reference only to the following non-limiting examples. It should be understood, however, that the examples following are illustrative only, and should not be taken in any way as a restriction on the generality of the invention described above.

Example 1

Identification of Microorganisms from Sputum Sample

[0150] Sputum samples were obtained from pathology laboratories and diluted with water. Two microliters of these samples were used to amplify a specific conserved sequence found in eubacterial species by polymerase chain reaction (PCR). The PCR product was then used as a template for direct incorporation of the fluorescent analogue Cy5 by randomly primed polymerisation reactions Dorell et al, 2001 (Genome Res. 11, 1706-15) or by post-PCR labelling.

[0151] Oligonucleotide probes were designed containing unique signature sequences chosen from conserved sequences in eubacterial species and printed on micro-array slides.

[0152] The labelled PCR product was then hybridised to the micro-array slide. The hybridisation took place under a glass cover slip in a humidified chamber submerged in a 53° C. water bath for 30 mins. The slides were washed, dried and scanned for fluorescence by using a laser-activated, confocal scanner.

[0153] Background was subtracted for each spot on the scanned array and analysed by the software to give the species present in the clinical sample and to advise on the appropriate treatment of the patient.

Materials and Methods

[0154] Slides: CodeLink® activated slides (GE Healthcare).

[0155] Oligonucleotide probes: Oligonucleotides ranging from 17 to 24 nucleotides with a 5' amino modification and 10 T attachment at 5' end were designed. Oligonucleotides were designed containing unique signature sequences in the eubacterial species' tuf gene.

[0156] Spotting solution: 1M sodium phosphate buffer. Oligonucleotides dissolved in Milli-Q water at a concentration of 100 μM. Final concentration of oligonucleotides in spotting solution was 25 μM and that of sodium phosphate buffer was 250 mM.

[0157] Printing: Printing of Epoxy slides was performed using MicroGrid II Compact Microarrayer (BioRobotics).

[0158] Target DNA: A fragment of the tuf gene was amplified using the primer pair MAtuf-F4 (forward primer, 5' KYACIGGHGTBGARATGTTC 3', SEQ ID NO.:396) and MAtuf-R5 (reverse primer, 5' GTDCGDCCRCCYTCWCGRAT 3', SEQ ID No. 395). A second fragment of the tuf gene was amplified using the primers MAtuf-F1 (SEQ ID No. 394) and MAtuf-R5 (SEQ ID No. 395). The primers were designed using conserved regions found in the tuf gene. The PCR conditions were 1×94° C., 1 min initial denaturation, 35×94° C., 30 secs/50° C., 30 secs/72° C., 30 secs, 1×72° C., 7 mins final extension. PCR products were purified using the Wizard PCR Preps DNA Purification kit (Promega) prior to labelling.

[0159] Labelling: Labelling was performed using the labelling mixture 2 mM dATP, dCTP, dGTP, 1.5 mM dTTP and 0.5 mM biotin-dUTP. Labelling was performed overnight at 37° C. for the product obtained using the primers MAtuf-F4 and MAtuf-R5. Direct labelling during the PCR reaction using Cy5-dUTP (GE Healthcare) was performed for the tuf fragment amplified using the MAtuf-F1 and MAtuf-R5 primers.

[0160] Hybridisation: Hybridisation was performed in a hybridisation chamber at 53° C. for 30 minutes. This was followed by 4 wash steps, 5 minutes each as follows: wash 1, 2×SSC/0.1% SDS; wash 2, 0.5×SSC/0.1% SDS; wash 3, 2×SSC; wash 4, 4×SSC/0.2% Tween 20. After hybridisation, the arrays were scanned using a GenePix 4000B scanner (Affymetrix).

Results

[0161] PCR amplification of the tuf gene fragment. The size of the amplified PCR product using the primers MAtuf-F4 and MAtuf-R5 was approximately 381 base pairs (FIG. 1). The primers MAtuf-F1 and MAtuf-R5 primers produced a PCR amplification product of approximately 1.1 kb.

[0162] Scanner outputs. The microarray successfully detected and differentiated organisms tested in this study; namely (a) Streptococcus pneumoniae; (b) Moraxella catarrhalis; (c) Legionella pneumophila; (d) Staphylococcus aureus; (e) Haemophilus influenzae (FIGS. 2, 3, 4, 5 and 6)

Discussion

[0163] DNA microarrays combine high-precision technology with advanced molecular biology to acquire high-throughput screening of DNA fragments. In this study, the potential of the DNA microarray technique to identify and differentiate PCR derived amplicons from five pathogenic bacteria was investigated; namely, Streptococcus pneumoniae, Moraxella catarrhalis, Legionella pneumophila, Staphylococcus aureus and Haemophilus influenzae.

[0164] A fragment from the tuf gene was chosen for amplification. This gene is universally present in all bacterial species. Parts of this gene are highly conserved (conserved regions) whereas the rest exhibit high variation (variable regions). The conserved and variable regions were determined via multiple sequence alignment of the gene using the tuf DNA sequences obtained from several different bacterial species. The conserved regions were used to design primers in order to obtain amplicons containing variable regions. These amplicons were used on a DNA microarray to detect and differentiate aforementioned bacterial species.

[0165] This indicates that microarray technology can be used as a method for identifying and discriminating bacterial species. The method has been proven to be highly sensitive and specific. This investigation demonstrates that bacterial tuf gene sequences amplified via PCR technique could be successfully coupled with DNA microarrays to serve the above purpose in a clinical diagnostic setup. If current demands can be met, nucleic acid microarray technology will give competitive advantages over other molecular based identification methods. The rapid development in this area will improve the technology and reduce the cost at the same time, making the microarray methodology attractive and competitive.

Sequences

[0166] Nucleotide sequences of tuf genes from various microorganisms are provided in SEQ ID NOs.:1 to 11. SEQ ID NOs.:12 to 393 are signature (probe) sequences from various microorganisms, in which:

ABAU--Acinetobacter baumanii BCEP--Burkholderia cepacia BPER--Bordetella pertussis CABO--Chlamydophila abortus CDIP--Corynebacterium diphtheriae CJEJ--Campylobacter jejuni CPER--Clostridium perfringens CPNE--Chlamydophila pneumoniae CTET--Clostridium tetani EFAE--Enterococcus faecalis FNUC--Fusobacterium nucleatum HPYL--Helicobacter pylori HHEP--Helicobacter hepaticas HINF--Haemophilus influenzae KPNE--Klebsiella pneumoniae LLON--Legionella longbeachiae LMON--Listeria monocytogenes LPNE--Legionella pneumophila MCAT--Moraxella catarrhalis MTUB--Mycobacterium tuberculosis MPNE--Mycoplasma pneumoniae NGON--Neisseria gonorrhoeae NMEN--Neisseria meningitidis PAER--Pseudomonas aeruginosa SAUR--Staphylococcus aureus SEPI--Staphylococcus epidermidis SSAP--Staphylococcus saprophyticus SMAL--Stenotrophomonas maltophilia SPNE--Streptococcus pneumoniae SPYO--Streptococcus pyogenes SMUT--Streptococcus mutans SSAN--Streptococcus sanguis SMAR--Serratia marcescens VVUL--Vibrio vulnificus VPAR--Vibrio parahaemolyticus VCHO--Vibrio cholerae YPES--Yersinia pestis YPSE--Yersinia pseudo tuberculosis

[0167] Sequences 394 and 395 are oligonucleotide primers designed against the conserved regions of tuf genes of various micro-organisms.

[0168] Sequences may also contain alternative bases. These are shown as follows:

R-A or G

Y-C or T

M-A or C

K-G or T

S-G or C

W-A or T

H-A or C or T

B-G or C or T

V-A or G or C

D-A or G or T

[0169] I-A base that binds to A, G, C or T

Sequence CWU 1

1

128611191DNAMycobacterium tuberculosis 1gtggcgaagg cgaagttcca gcggaccaag ccccacgtca acatcgggac catcggtcac 60gttgaccacg gcaagaccac cctgaccgcg gctatcacca aggtcctgca cgacaaattc 120cccgatctga acgagacgaa ggcattcgac cagatcgaca acgcccccga ggagcgtcag 180cgcggtatca ccatcaacat cgcgcacgtg gagtaccaga ccgacaagcg gcactacgca 240cacgtcgacg cccctggcca cgccgactac atcaagaaca tgatcaccgg cgccgcgcag 300atggacggtg cgatcctggt ggtcgccgcc accgacggcc cgatgcccca gacccgcgag 360cacgttctgc tggcgcgtca agtgggtgtg ccctacatcc tggtagcgct gaacaaggcc 420gacgcagtgg acgacgagga gctgctcgaa ctcgtcgaga tggaggtccg cgagctgctg 480gctgcccagg aattcgacga ggacgccccg gttgtgcggg tctcggcgct caaggcgctc 540gagggtgacg cgaagtgggt tgcctctgtc gaggaactga tgaacgcggt cgacgagtcg 600attccggacc cggtccgcga gaccgacaag ccgttcctga tgccggtcga ggacgtcttc 660accattaccg gccgcggaac cgtggtcacc ggacgtgtgg agcgcggcgt gatcaacgtg 720aacgaggaag ttgagatcgt cggcattcgc ccatcgacca ccaagaccac cgtcaccggt 780gtggagatgt tccgcaagct gctcgaccag ggccaggcgg gcgacaacgt tggtttgctg 840ctgcggggcg tcaagcgcga ggacgtcgag cgtggccagg ttgtcaccaa gcccggcacc 900accacgccgc acaccgagtt cgaaggccag gtctacatcc tgtccaagga cgagggcggc 960cggcacacgc cgttcttcaa caactaccgt ccgcagttct acttccgcac caccgacgtg 1020accggtgtgg tgacactgcc ggagggcacc gagatggtga tgcccggtga caacaccaac 1080atctcggtga agttgatcca gcccgtcgcc atggacgaag gtctgcgttt cgcgatccgc 1140gagggtggcc gcaccgtggg cgccggccgg gtcaccaaga tcatcaagta g 11912953DNALegionella longbeachiae 2gtttggtggt atagcaaaag catacgatca gatcgatgct gcaccagaag aaagagagcg 60aggcatcaca atctcaacag cgcacgttga atacgaatca gcgaacagac actatgcgca 120tgttgatccc aggacatgct gactatgtga agaacatgat tacaggtgct gcacaaatgg 180acggagcgat acttgtagta tctgcagcag atggtcctat gcctcaaact agagaacata 240ttctattgtc acgcagtagg ggtgccctac atagtagtgt ttatgaataa agcggacatg 300gttgatgatc cagagctctt agagcttgta gaaatggaag tccgtgattt gttgagcagt 360tatgattttc ctggtgatgt atccaattgt tgttggatct gcattgaaag cattagaagg 420tgataccagt gatattgggg tgccagcaat agagaaattg gtagagacta tggattctta 480tattccagag cctgtaagaa acattacaat cgttcttatt accgattgaa gatgtatttt 540caatatctgg ccgaggaaca gtagtaacag gacgtatcga aagcggaatt atcaaagttg 600gcgaagagat cgaaattgta ggaattcgtg aactgaaaga ctacctgtac tggtgttgag 660atgttccgta agttattaga cgaaggacgt gcaggtgata acgttggtat attactccgt 720ggaacaaaac gagacgaagt tgagcgtggt caggtatagc caaccaggta caattaagcc 780tcacactaaa tttgaagcgg aagtatacgt gttatctaaa gaagaaggtg gacgacatac 840cccgtttttc aatggatata gaccacagtt ttattttaga acacagacga acaggaactt 900gtgatttacc atctggagtt gaaatggtaa tgcctggaga taacgtacag ttg 9533924DNAFusobacterium nucleatum 3agctaaaaaa gtagattttg accaaattga tgctgctcca gaagaaaaag aaagaggaat 60tactattaat acagctcata ttgaatatga aacagcaaat agacactatg ctcacgttga 120ctgtccagca tgctgactat gttaaaaata tgataactgg tgctgcacaa atggatggag 180ctatacttgt tgtatcagct gctgatggtc ctatgcctca aacaagagaa catatcttac 240tttctagaca agtgagtacc atatattatt gtttatttaa ataaatcaga tatggttgat 300gatgaagaat tactagaatt ggtagaaatg gaagttagag aattattaac tgaatatgga 360ttcccaggag atgacatcct gaattagagg ttcatcatta ggagctttaa atggtgaaga 420aaaatggata gaaaagataa tggaacttat ggatgcagta gatagctata tccctactcc 480tgaaagagca gtagatcaac cattctgagc caatagaaga cgttttcact atcacaggaa 540gaggaacagt tgttacagga agagttgaaa gaggaatcat caaagttgga gaagaaattg 600aaatagttgg aattaaacct acaactaaaa cactttacag gggttgaaat gtttagaaaa 660cttcttgatc aaggtcaagc aggagataat atcggagtat tattaagagg aactaagaaa 720gaagaagttg aaagaggaca agttcttgct aaaccagaag taccaccctc atacaaactt 780taaaggtgaa gtctatgtat taactaaaga tgaaggagga agacacactc catttttcac 840aggatacaga cctcaattct attttagaac tactgatatc actgtgcaga actttaccag 900atggagtaga aatggttatg ccag 9244909DNAMoraxella catarrhalis 4agaaaaagca cgtggtatta ctattaacac atctcacatc gagtatgaca cagaagctcg 60tcactacgca catgtagact gcccaggcca cgctgactat gttaaaaaca tgatcacagg 120tgctgcagat ggacggcgca atcttggttg tttctgcaac tgacggccca atgccacaaa 180ctcgtgagca catcctactg tctcgtcagg ttggtgtacc atatatcatg gtattcatga 240acaagtgcga catgagatga tgaagagcta ctagaattgg ttgaaatgga agttcgtgaa 300cttctatctg actatgactt cccaggtgat gacaccccaa tcatcaaagg ttcagcacta 360gaagcattga atggttctgc gtaaatatgg tgagcctgct gttctagaac tactagacac 420gctagattca tacatcccag agcctgagcg tgacatcgat aagtcattcc taatgccaat 480cgaagatgtc ttctcaatct caggtgtgta ctgttgtaac tggccgtgtt gaatcaggca 540ttattaaagt tggtgatgaa attgaaatca tcggtatcaa accaactact aaaaccactt 600gtactggtgt tgaaatgttc cgtaagctgc tgacgaggtc gtgcaggtga gaactgtggt 660atcctactac gtggtactaa gcgtgaagaa gttcaacgtg gtcaagtatt ggctaagcca 720ggttcaatca ccccacacac caagtttgat gcagaagata cggctatcaa aagaagaagg 780tggtcgtcat accccattcc taaatggcta tcgtccacag ttctacttcc gtaccacaga 840cgtaactggt gccatcaccc tacaagaagg cactgaaatg gtttgccagt gataacgttg 900agatgagcg 9095982DNAStenotrophomonas maltophilia 5tgacaagatc ggtgccgagc gcttcggtgg cgagttcaag gactactcct cgatcgacgc 60cgcgccggaa gaaaaggctc gtggtatcac gatctcgacc gcgcacgtcg aatacgaatc 120cccgatctca ctacgcccac gttgactgcc cgggccacgc tgactacgtc aagaacatga 180tcaccggtgc cgcccagatg gacggcgcga tcctggtgtg ctcggccgct gacggcccga 240tgccgcagac ccgggcacat cctgctgtcg cgccaggtcg gcgtgccgta catcgtcgtg 300ttcctgaaca aggccgacat ggtcgacgac gccgagctgc tcgagctggt cgagatggaa 360gtgcgcgaac tgctgagcag tcgagttccc gggcgacgac accccgatca tcgccggttc 420ggcccgcctg gcgctggaag gcgaccagag cgacatcggc gtgccggcca tcctgaagct 480ggtcgacgcg ctggacagct ggattcgggc cggagcgtgc gatcgacaag ccgttcctga 540tgccggtgga agacgtgttc tcgatctcgg gccgcggcac cgtggtgacc ggtcgtatcg 600agcgcggcgt gatcaaggtt ggcgacgaaa tcgaaatcgt cggcatccgt ccggtgcaga 660agaccaccgt ccggcgttga aatgttccgc aagctgctgg accagggtca ggcaggcgac 720aacgctggcc tgctgctgcg cggcaccaag cgtgacgacg tcgagcgtgg ccaggtgctg 780gccaagccgg gcacgacagc cgcacaccaa gttcgaaggc gaagtgtacg tcctgtcgaa 840ggacgaaggc ggccgccaca ccccgttctt caacggctac cgtccgcagt tctacttccg 900caccaccgac atcaccggcg cactcgctgc cggaaggcgt cgaaatggtg atgccgggtg 960acaacgtcaa gatggtcgtc ac 9826984DNAStreptococcus sanguis 6ctgtattggc acgtcgcttg ccttcagcag ttaaccaacc taaagactat gcgtctatcg 60atgctgctcc agaagaacgc gaacgcggaa tcactatcaa cactgcgcac gttgagtatg 120aaactgcagc gtcactacgc tcacatcgac gctccaggac acgcggacta cgttaaaaac 180atgatcactg gtgccgctca aatggacgga gctatccttg tagtagcttc aactgacgga 240ccaatgccac aaatgtgagc acatcttgct ttcacgtcag gttggtgtta aacacttgat 300cgtcttcatg aacaaagttg acttggttga cgatgaagaa ttgcttgaat tggttgaaat 360ggaaatccgt gacctcttgt cagaatacga cttcccaggt gacgatcttc cagttatcca 420aggttcagct taaagctctt gaaggtgact ctaaatatga agacatcatc atggaattga 480tggacactgt tgatgagtac atcccagaac cagaacgcga tactgacaag ccattgcttc 540ttccagtcga agacgttctc aatcactggt cgtggtacag ttgcttcagg acgtatcgac 600cgtggtatcg ttaaagtcaa cgacgaaatc gaaatcgttg gtatcaaaga agaaatccaa 660aaagcagttg ttactggtgt tgaagttccg taaacagctt gacgaaggtc ttgcagggac 720aacgtaggtg tgcttctccg tggtatccaa cgtgatgaaa tcgaacgtgg acaagttatc 780gctaaaccag gttcaatcaa cccacacata attcaagggt gaagtttata tccttactaa 840agaagaaggc ggacgtcaca ctccattctt caacaactac cgtccacagt tctacttccg 900tacaactgac gttacaggtt caatcgaact tccacaggac tgaaatggta atgcctggtg 960ataacgtaac aatcgacgtt gagt 9847964DNAStreptococcus mutans 7ctgtactggc acgtcgtctt ccaagtgcag taaaccaacc aaaagattat tcatctattg 60atgctgctcc tgaagaacgc gaacgcggta tcactatcaa tactgcgcac gttgagtatg 120aaactgaaac gtcactatgc tcacattgac gctccaggac acgcggacta tgttaaaaac 180atgattactg gtgctgccca aatggatggt gctatccttg tagtagcttc aactgatggt 240ccaatgccac aaatgtgaac acattcttct ttcacgtcaa gttggtgtta aataccttat 300tgtcttcatg aataaggttg atttggttga tgatgaagaa ctgcttgaat tggttgaaat 360ggaaatccgt gatcttcttc aaatatgatt tcccaggtga tgatattcca gttattcaag 420gttcagctct taaagctctt gaaggtgata ctgctcaaga agatatcatc atggaattaa 480tgcatactgt tgatgactac attccgatca gaacgtgata ctgataagcc actccttctt 540ccagtcgaag atgttttctc aatcactggt cgtggtactg ttgcttcagg acgtattgat 600cgtggtactg ttaaagttaa cgatgaagtt gaatcttggt atccgtgatg acattcaaaa 660agctgttgtt actggtgttg aaatgttccg taaacaattg gatgaaggta ttgcagggga 720taatgttggt gttctccttc gtggtatcca acgtgataaa tcaacgtggt caagttcttg 780ctaaaccagg ttcaattcac ccacatacta aattcaaagg tgaagtttat atccttacta 840aagaagaagg tggacgtcat acaccattct tcaataacta tcgccacaat ctacttccgt 900acaactgacg taactggttc aattgagttg ccagcaggta ctgaaatggt tatgcctggt 960gata 9648870DNABurkholderia cepacia 8gttcggcggc gaagcgaaga agtacgacga aatcgacgcg gcgccggaag aaaaggcacg 60cggcatcacg atcaacaccg cgcacatcga gtacgaaacg gcgaaccgcc actacgcgca 120cgtcgacccc gggccacgcc gactacgtga agaacatgat cacgggtgca gcgcagatgg 180acggcgcaat cctggtgtgc tcggccgcag acggcccgat gccgcaaacg cgtgagcaca 240tcctgctggc gcgcggttgg cgttccgtac atcatcgtgt tcctgaacaa gtgcgacatg 300gtggacgacg ctgaactgct cgagctggtc gagatggaag ttcgcgaact gctgtcgaag 360tacgacttcc cgggcgacgc agccgatcat caagggttcg gcaaagctgg cgctggaagg 420cgacaagggc gagctgggcg aaacggcgat catgaacctg gccgacgcgc tggacacgta 480catcccgacg ccggagcgcg cggtgacgta cgttcctgat gccggtggaa gacgtgttct 540cgatctcggg ccgcggtacg gtggtgacgg gtcgtgtgga gcgcggcgtg gtgaaggtcg 600gtgaggaaat cgaaatcgtc ggtatcaagc cacgggaaga cgacctgcac gggcgttgaa 660atgttccgca agctgctgga ccagggtcag gcaggcgaca acgtcggtat cctgctgcgc 720ggcacgaagc gtgaagacgt ggagcgcggt caggttcggc gagccgggtt cgatcacgcc 780gcacacgcac ttcacggccg aagtgtacgt gctgagcaag gacgaaggcg gccgtcacac 840gccgttcttc aacaactacc gtccgcagtt 8709936DNAEnterococcus faecalis 9gggaaagcac aaagctacga ttctatcgat aacgctccag aagaaaaaga acgtggaatc 60acaatcaaca cttctcatat cgaatatgaa actgaaactc gtcactatgc acacgttgac 120tgcccagcac gcggactacg ttaaaaacat gatcactggt gctgctcaaa tggacggagc 180tatcttagta gtttctgctg ctgatggtcc tatgcctcaa acacgtgaac atatcttatt 240atcacgtaac gttggtacca tacatcgttg tattcttaaa caaaatggat atggttgatg 300acgaagaatt attagaatta gtagaaatgg aagttcgtga cttattatca gaatacgatt 360tcccaggcga tgatgttccg tatcgcaggt tctgctttga aagctttaga aggcgacgag 420tcttatgaag aaaaaatctt agaattaatg gctgcagttg acgaatatat cccaactcca 480gaacgtgata ctgacaaacc attcagatcc agtcgaagac gtattctcaa tcactggacg 540tggtactgtt gctacaggac gtgttgaacg tggtgaagtt cgcgttggtg acgaagttga 600aatcgttggt attaaagacg aaacatctaa acaacgttac aggtgttgaa atgttccgta 660aattattaga ctacgctgaa gcaggcgaca acatcggtgc tttattacgt ggtgtagcac 720gtgaagatat cgaacgtgga caagtattag ctaaaccgct acatcactcc acacacaaaa 780ttcaaagctg aagtatacgt attatcaaaa gaagaaggcg gacgtcacac tccattcttc 840actaactacc gtcctcaatt ctacttccgt acaacagacg ttatggtgtg tagaattgcc 900agaaggtact gaaatggtaa tgcctggtga taacgt 93610945DNACorynebacterium diphtheriae 10tgcacaatca tacgacatga ttgacaacgc accagaagaa aaagaacgtg gtattacaat 60caatactgca cacatcgaat atcaaactga caaacgtcac tatgctcacg ttgactgccc 120aggacactga ctatgttaaa aacatgatca ctggtgctgc gcaaatggac ggcggtatct 180tagttgtatc tgcagctgat ggtccaatgc cacaaactcg tgaacacatt cttttatcac 240gtaacgttgg tgtcagcttt agttgtattc ttaaacaaag ttgatatggt agacgacgaa 300gaattattag aattagtaga aatggaagtt cgtgacttac tatctgaata cgacttccca 360ggtgacgacg tacctgtaac gtggttcagc attaaaagct ttagaaggcg acgaaaaata 420cgaagaaaaa atcttagaat taatgcaagc agttgatgac tacatcccaa ctccagaacg 480tgattctgac aaaccattca tgatgcagtg aggacgtatt ctcaatcact ggtcgtggta 540ctgttgctac aggccgtgtt gaacgtggtc aaatcaaagt tggtgaagaa gttgaaatca 600tcggtttaca tgacacttct aaaacaactg tactgtgtag aaatgttccg taagttatta 660gactacgctg aagctggtga caacattggt gctttattac gtggtgttgc tcgtgaagac 720gtacaacgtg gtcaagtatt agctgctcct ggttcaatac acacatacaa aattcaaagc 780ggaagtttac gttttatcta aagacgaagg tggacgtcac actccattct tcagtaacta 840ccgcccacaa ttctatttcc gtactactga cgtaactggc gttttcaata ccagaaggta 900ctgaaatggt tatgcctggt gacaacgttg aaatgacagt agaat 94511969DNANeisseria meningitidis 11cccgaagaaa aagcacgcgg tattaccatt aacacctcgc acgtggaata cgaaaccgaa 60acccgccact acgcacacgt agactgcccg gggcacgccg actacgttaa aaacatgatt 120accggtggca caaatggacg gtgcaatcct ggtatgttcc gcagccgacg gccctatgcc 180gcaaacccgc gaacacatcc tgctggcccg tcaagtaggc gtaccttaca tcatcgtgtt 240catgaacaaa tgcaatggtc gacgatgccg agctgttgga actggttgaa atggaaatcc 300gcgacctgct gtccagctac gacttccccg gcgacgactg cccgattgta caaggttctg 360cactgaaagc cttggaaggg agccgcttat gaagagaaaa tcttcgaact ggctgccgca 420ttggacagct acatcccgac tcccgagcgt gccgtggaca aacctttcct gctgcctatc 480gaagacgtgt tctccatttc cggccaggac agtagtaacc ggccgtgtag agcgcggtat 540catccacgtt ggtgacgaga ttgaaatcgt cggtctgaaa gaaacccaaa aaaccacctg 600taccggtgtt gaaatgttcc gcaaactgct gacgaggtca ggcgggcgac aacgtacgcg 660tattgctgcg cggtaccaaa cgtgaagacg tggaacgcgg tcaggtattg gccaaacccg 720ggtactatca ctcctcacac caagttcaaa gcagacggta cgactgagca aagaagaggg 780cggccgccat actccgttct tcgccaacta ccgtccgcat tctacttccg taccaccgac 840gtaaccggcg cggttacttt ggaagaagga gtggaaatgg taagcctggg agaacgtaac 900catcaccgta gactgattgc gtctatcgct atggaagagc tgcgcttgcg tcgtgtcgcg 960cgtgtccat 9691229DNAHaemophilus influenzae 12tattatccgt acaggtgatg aagtagaaa 291327DNAHaemophilus influenzae 13aaagatacag cgaaaactac tgtaacg 271424DNAhaemophilus influenzae 14catcggtgca ttattacgtg gtac 241526DNAhaemophilus influenzae 15catactccat tcttcaaagg ttaccg 261626DNAHaemophilus influenzae 16tgactggtac aatcgaatta ccagaa 261724DNAHaemophilus influenzae 17ccgtaaatta cttgacgaag gtcg 241822DNAMoraxella catarrhalis 18tgagcgtgac atcgataagt ca 221929DNAMoraxella catarrhalis 19caggcattat taaagttggt gatgaaatt 292028DNAMoraxella catarrhalis 20aaaccaacta ctaaaaccac ttgtactg 282121DNAMoraxella catarrhalis 21cgtaagctgc tagacgaagg t 212224DNAMoraxella catarrhalis 22taccccattc ctaaatggct atcg 242321DNAMoraxella catarrhalis 23taactggtgc catcacccta c 212422DNAEnterococcus faecalis 24aaggcgacga gtcttatgaa ga 222524DNAEnterococcus faecalis 25aattaatggc tgcagttgac gaat 242619DNAEnterococcus faecalis 26gaagttcgcg ttggtgacg 192728DNAEnterococcus faecalis 27gacgaaacat ctaaaacaac tgttacag 282823DNAEnterococcus faecalis 28tggtgttgta gaattgccag aag 232924DNAEnterococcus faecalis 29taaaccagct acaatcactc caca 243027DNAStaphylococcus aureus 30gttgacatgg ttgacgatga agaatta 273132DNAStaphylococcus aureus 31cttagaatta atggaagctg tagatactta ca 323228DNAStaphylococcus aureus 32atcatcggtt tacatgacac atctaaaa 283329DNAStaphylococcus aureus 33caccacatac tgaatttaaa gcagaagta 293426DNAStaphylococcus aureus 34cattcttctc aaactatcgt ccacaa 263524DNAStaphylococcus aureus 35ctggtgttgt tcacttacca gaag 243626DNAStaphylococcus aureus 36tactgaaatg gtaatgcctg gtgata 263720DNAStaphylococcus aureus 37ccaatcgcga ttgaagacgg 203827DNAStaphylococcus aureus 38ctggttcagc attaaaagct ttagaag 273925DNAStaphylococcus aureus 39tgacaacatt ggtgcattat tacgt 254024DNAStaphylococcus aureus 40tgttacaggt gttgaaatgt tccg 244126DNAStaphylococcus aureus 41gtattatcaa aagacgaagg tggacg 264226DNAStaphylococcus aureus 42gcgatgctca atacgaagaa aaaatc 264329DNAStaphylococcus epidermidis 43tagacttaat gcaagcagtt gatgattac 294425DNAStaphylococcus epidermidis 44ccacacacaa aattcaaagc tgaag 254525DNAStaphylococcus epidermidis 45ctggtgttgt aaacttacca gaagg 254621DNAStaphylococcus epidermidis 46gaaatggtta tgcctggcga c 214727DNAStaphylococcus epidermidis 47ctggttctgc attaaaagca ttagaag 274824DNAStaphylococcus epidermidis 48tgacaacatc ggtgctttat tacg 244925DNAStaphylococcus epidermidis 49ctgttactgg tgtagaaatg ttccg 255027DNAStaphylococcus epidermidis 50cgtattatct aaagatgaag gtggacg 275117DNAPseudomonas aeruginosa 51aagttcgagt gcgaagt 175219DNAPseudomonas aeruginosa 52aaggcgtaga gatggtaat 195317DNAPseudomonas aeruginosa 53ttcttcaagg gctaccg

175423DNAPseudomonas aeruginosa 54atcatcaagg tccaggaaga agt 235519DNAPseudomonas aeruginosa 55accaagacta cctgcaccg 195620DNAPseudomonas aeruginosa 56tgtacgtgct gtccaaggaa 205718DNAPseudomonas aeruginosa 57ccggtaactg cgaactgc 185820DNABordetella pertussis 58gtacattctg tccaaggaag 205918DNABordetella pertussis 59gacaacgtgg gtatcttg 186017DNABordetella pertussis 60gacaaggaaa tggtgct 176121DNAChlamydia pneumoniae 61aatttaagtc agctgtttac g 216220DNAChlamydia pneumoniae 62gaggtattgg aaagaacgat 206320DNAChlamydia pneumoniae 63ataacgttga gcttgatgtt 206420DNAHaemophilus influenzae 64acttcgaatc agaagtgtac 206520DNAHaemophilus influenzae 65caaacgtgaa gaaatcgaac 206621DNAHaemophilus influenzae 66cgataacatc aagatgacag t 216720DNALegionella pneumophila 67agtttgaagc agaagtgtat 206820DNALegionella pneumophila 68tgttattacg aggtacgaag 206923DNALegionella pneumophila 69agataatgtg caattagttg tta 237023DNAMycoplasma pneumoniae 70gaaatttaaa gcggaaatct atg 237119DNAMycoplasma pneumoniae 71gaacgtggtc aagtgttag 197220DNAMycoplasma pneumoniae 72gacaatacct cgattacagt 207320DNAMycobacterium tuberculosis 73aacatctcgg tgaagttgat 207418DNAMycobacterium tuberculosis 74tgacaacacc aacatctc 187516DNAMycobacterium tuberculosis 75acgaaggtct gcgttt 167622DNAStaphylococcus aureus 76tgaattcaaa gcagaagtat ac 227720DNAStaphylococcus aureus 77attattacgt ggtgttgctc 207821DNAStaphylococcus aureus 78gtgataacgt tgaaatgaca g 217921DNAStreptococcus pneumoniae 79aattcaaagg tgaagtctac a 218019DNAStreptococcus pneumoniae 80caacgtgatg aaatcgaac 198118DNAStreptococcus pneumoniae 81gacaatcgac gttgagtt 188224DNAStreptococcus pyogenes 82caaaggtgaa gtatatatcc tttc 248318DNAStreptococcus pyogenes 83caacgtgacg aaatcgaa 188418DNAStreptococcus pyogenes 84cgtgacaatc aacgttga 188523DNAPseudomonas aeruginosa 85cacgttgact gccccggtca cgc 238625DNAPseudomonas aeruginosa 86acgccttccg gcagttcgca gttac 258722DNAPseudomonas aeruginosa 87atcggtcacg ttgaccatgg ca 228821DNAPseudomonas aeruginosa 88gccgccttcg cggatcgcga a 218924DNANeisseria gonorrhoeae 89caccctgact gctgctttga ctac 249022DNANeisseria gonorrhoeae 90ccacctgtac cggcgttgaa at 229126DNANeisseria gonorrhoeae 91gtattggcca aaccgggtac tatcac 269217DNANeisseria gonorrhoeae 92gagggcggcc gccatac 179327DNANeisseria gonorrhoeae 93ccattaacac ctcgcacgta gaatacg 279426DNANeisseria gonorrhoeae 94attttagcta aaaaattcgg cggcgc 269522DNAHelicobacter pylori 95agcgatttca gcggtgcttt ct 229625DNAHelicobacter pylori 96gagactgaaa ccagacacta tgcgc 259725DNAHelicobacter pylori 97ggatggagcg atcttggttg tttct 259826DNAHelicobacter pylori 98gcgtgcctca cattgttgtt ttctta 269933DNAHelicobacter pylori 99atggtagatg accaagaatt gttagagctt gta 3310024DNAHelicobacter pylori 100gttgagcgcg tatgaatttc ctgg 2410124DNAHelicobacter pylori 101cctatcgtag cgggttcagc ttta 2410226DNAHelicobacter pylori 102gtgaatgggg cgaaaaagtg cttaaa 2610328DNAHelicobacter pylori 103tcatggctga agtggattcc tatatccc 2810421DNAHelicobacter pylori 104tgggcgtgct tttgagagga a 2110528DNAHelicobacter pylori 105atggttctat gcaaaccagg ttctatca 2810629DNAHelicobacter pylori 106gttaggaacc aaatttgcga ttcgtgaag 2910723DNAHelicobacter hepaticus 107gcagctattt ctgctgtgtt ggc 2310825DNAHelicobacter hepaticus 108cggagcaatt cttgttgttt ctgcc 2510930DNAHelicobacter hepaticus 109gatgctgaat tacttgagct tgtggaaatg 3011033DNAHelicobacter hepaticus 110ttgcttagtc aatatgattt ccctggagat gat 3311134DNAHelicobacter hepaticus 111taatgtaggt gaatggggtg aaaaagtatt aaaa 3411227DNAHelicobacter hepaticus 112gtagaaagag gtgttgtgca agtaggc 2711334DNAHelicobacter hepaticus 113ggtattttgt tgcgaggaac aaaaaaagaa gaag 3411423DNAHelicobacter hepaticus 114atggttcttt gtaagcccgg ctc 2311525DNAHelicobacter hepaticus 115ggaacttatt gctcctgtgg cactt 2511633DNACampylobacter jejuni 116agcgtggtat tactattgct acttctcata ttg 3311728DNACampylobacter jejuni 117cacattcttc tttctcgtca agtaggcg 2811834DNACampylobacter jejuni 118gatgatgctg aacttttaga gttagttgaa atgg 3411934DNACampylobacter jejuni 119ttattaagct cttatgattt cccaggcgat gata 3412031DNACampylobacter jejuni 120ggcgatgata cacctattat ttctggttct g 3112127DNACampylobacter jejuni 121gctcttgaag aagctaaagc tggacaa 2712232DNACampylobacter jejuni 122cttatggctg cagttgatag ctatattcca ac 3212332DNACampylobacter jejuni 123cgtggtacta aaaaagaaga agttatccgt gg 3212434DNACampylobacter jejuni 124gatgttacag gttcgattaa attagctgat ggtg 3412525DNACampylobacter jejuni 125ctgtaagctt gatcgctcca gtagc 2512622DNAChlamydophila abortus 126gcaattacac gcgcactgtc ag 2212727DNAChlamydophila abortus 127gttgaatacg aaacccctaa ccgtcac 2712821DNAChlamydophila abortus 128ccgctactga cggtgctatg c 2112922DNAChlamydophila abortus 129ctgttggcaa gacaggtagg gg 2213020DNAChlamydophila abortus 130aggatgccga gcttgtcgac 2013129DNAChlamydophila abortus 131gaagaaaaag gttacaaagg ctgccctat 2913233DNAChlamydophila abortus 132gaaatgttta gaaaagaact tccagaaggt cag 3313324DNAChlamydophila abortus 133atggtgattt gccaacctaa cagc 2413428DNAChlamydophila abortus 134gatatgattt ctcaagagga tgccgagc 2813529DNAClostridium perfringens 135agcagctata acaacagttt tagcacaag 2913633DNAClostridium perfringens 136ggtggagcag aagcattcaa atatgatgaa ata 3313729DNAClostridium perfringens 137gttgagtacg aaacagctaa cagacacta 2913830DNAClostridium perfringens 138ggagctatat tagtttgttc agcagctgat 3013934DNAClostridium perfringens 139cttattatca tcaagagttg gagttgacca catc 3414022DNAClostridium perfringens 140aacccaactg acgaagctgc aa 2214128DNAClostridium perfringens 141agaggagttc tacatgtagg agacgaag 2814230DNAClostridium perfringens 142ggtatccaaa gaactgatat cgaaagaggt 3014331DNAClostridium perfringens 143caagttttag ctcaagttgg aacaatcaac c 3114433DNAClostridium perfringens 144ggaagttgaa ttaatcacag aaatcgctat gga 3314528DNAClostridium tetani 145gggtttgcga aagcattcaa atatgacg 2814628DNAClostridium tetani 146atcctagtag taagtgcagc agatggtc 2814731DNAClostridium tetani 147cacatactat tagcatccag agttggagtt g 3114828DNAClostridium tetani 148gaccaagtag atgacgcaga gttaatcg 2814924DNAClostridium tetani 149acgcaccagt agtagtagga tccg 2415028DNAClostridium tetani 150gaaaatccag aagatgatgc agcaacac 2815133DNAClostridium tetani 151gacgaaatag aaatcgtagg attaagtgat gaa 3315233DNAClostridium tetani 152agcaagaaat cagtaatcac aggaatagaa atg 3315329DNAClostridium tetani 153attagcagca acaggatcag taaaaccac 2915435DNAClostridium tetani 154atgaaggtag aattaataac aagagtagca atgga 3515526DNAListeria monocytogenes 155ggctatgctg atgcacaagc ttatga 2615631DNAStaphylococcus saprophyticus 156ggtgactctg tagcacaatc atatgacatg a 3115733DNAStaphylococcus saprophyticus 157acttcacaca tcgagtatac tactgacaaa cgt 3315830DNAStaphylococcus saprophyticus 158cggagctatc ttagtagtat ctgctgctga 3015926DNAStaphylococcus saprophyticus 159acaaggtgac aaggaagctc aagacc 2616029DNAStaphylococcus saprophyticus 160ttaatgcaag ctgttgatga cttcattcc 2916132DNAStaphylococcus saprophyticus 161gtatgcaaga agaatcaagc aaaacaactg tt 3216226DNAStaphylococcus saprophyticus 162ggtgtttcac gtgatgatgt acaacg 2616338DNAStaphylococcus saprophyticus 163gaaatggatg ttgaattaat ttctccaatc gctattga 3816420DNAVibrio vulnificus 164tacggcggta cagctcgtga 2016533DNAVibrio vulnificus 165ggtatcacaa tctctacttc tcacgtagag tac 3316624DNAVibrio vulnificus 166tacgacactc catctcgcca ctac 2416731DNAVibrio vulnificus 167gatgatgaag agcttctaga gctagtagaa a 3116824DNAVibrio vulnificus 168ctagcagaag cgctagacag ctac 2416926DNAVibrio vulnificus 169gttgttgagc taatctctcc aatcgc 2617030DNAVibrio parahaemolyticus 170gctgctatct gtactactct agctaaagtg 3017122DNAVibrio parahaemolyticus 171ggcggtgaag cgaaagactt cg 2217228DNAVibrio parahaemolyticus 172ggtatcacaa tcgcaacttc tcacgtag 2817323DNAVibrio parahaemolyticus 173gtacgacact ccaagccgtc act 2317433DNAVibrio parahaemolyticus 174acgatgaaga gctactagaa ctagtagaaa tgg 3317533DNAVibrio parahaemolyticus 175ctagctgaag ctctagatac ttacatccct gag 3317620DNAVibrio parahaemolyticus 176agagcgtgcg gtagatcagc 2017725DNAVibrio parahaemolyticus 177gcgtggtatc ctaacagttg gtgac 2517827DNAVibrio parahaemolyticus 178gttgagctaa ttgcaccaat cgcaatg 2717934DNAVibrio cholerae 179acaatcaata cttctcacgt agagtacgat actc 3418026DNAVibrio cholerae 180tgtccaggac acgcggatta tgttaa 2618123DNAVibrio cholerae 181tagttgtagc ggcaactgac ggt 2318230DNAVibrio cholerae 182gcactggata cttatattcc agagccagag 3018332DNAVibrio cholerae 183acagtaaaaa cgacctgtac aggtgtagag at 3218424DNAVibrio cholerae 184gacgtaacag gcagcatcga gcta 2418528DNAVibrio cholerae 185gtgaagatgg ttgtagacct gattgcac 2818624DNAAcinetobacter baumanii 186cgatcgcaac aatctgtgcg aaaa 2418732DNAAcinetobacter baumanii 187gaaagattac tcacaaatcg actcagctcc ag 3218830DNAAcinetobacter baumanii 188cacgtagaat acgactctcc aattcgtcac 3018927DNAAcinetobacter baumanii 189gacgacgaag agcttcttga gcttgta 2719028DNAAcinetobacter baumanii 190tggtcaatat ggcgagtctt cagttctt 2819119DNAAcinetobacter baumanii 191aaccagagcg cgcaatcga 1919223DNAAcinetobacter baumanii 192aagctggtat cgtgaaagtg ggc 2319325DNAAcinetobacter baumanii 193tgcaatccag ttgaaagaag gcgtt 2519433DNAAcinetobacter baumanii 194cgttgaaatg tcagtagaat tgatccaccc aat 3319525DNAYersinia pestis 195atggatggtg caatcctggt tgttg 2519619DNAYersinia pestis 196ttgggtcgtc aggttggcg 1919723DNAYersinia pestis 197ctggcgatga tctgccagtt gtt 2319830DNAYersinia pestis 198gctggttacc tggattctta tatcccagaa 3019933DNAYersinia pestis 199actgttaaat ctacttgtac tggcgttgaa atg 3320031DNAYersinia pestis 200aaccacacac tacctttgaa tcagaagttt a 3120133DNAYersinia pseudotuberculosis 201ggtcatgctg actacgttaa aaatatgatc acc 3320224DNAYersinia pseudotuberculosis 202atggatggag cgatcttggt tgtt 2420329DNAYersinia pseudotuberculosis 203acgctgagtg ggaagctaaa attatcgag 2920428DNAYersinia pseudotuberculosis 204ttggcagaag ctctggatag ctatattc 2820530DNAYersinia pseudotuberculosis 205acgattaaaa caacttgtac tggcgttgaa 3020625DNAYersinia pseudotuberculosis 206ggtactaagc gtgacgatgt tcagc 2520732DNAYersinia pseudotuberculosis 207gttgttaacc taattgctcc tatcgcaatg ga 3220821DNAMoraxella catarrhalis 208agtttgatgc agaagtatac g 2120921DNAMoraxella catarrhalis 209tatcctacta cgtggtacta a 2121018DNAMoraxella catarrhalis 210ataacgttga gatgagcg 1821123DNAStreptococcus pyogenes 211accttgttga tgacgaagag ttg 2321227DNAStreptococcus pyogenes 212aattagttga gatggaaatt cgtgacc 2721326DNAStreptococcus pyogenes 213gtattctcaa ttacaggtcg tggtac 2621421DNAStreptococcus pyogenes 214gtggtactgt tcgtgtcaac g 2121523DNAStreptococcus pyogenes 215aacgtaggta tccttcttcg tgg 2321621DNAStreptococcus pyogenes 216cttcgtggtg ttcaacgtga c 2121722DNAStreptococcus pyogenes 217ttcaacgtga cgaaatcgaa cg 2221831DNAStreptococcus pyogenes 218gtgaagtata tatcctttct aaagacgaag g 3121922DNAStreptococcus pyogenes 219tccagcaggt acagaaatgg tt

2222023DNAStreptococcus pyogenes 220cgtgacaatc aacgttgagt tga 2322120DNAStreptococcus pneumoniae 221cactggtgct gctcaaatgg 2022224DNAStreptococcus pneumoniae 222caaggttcag cacttaaagc tctt 2422327DNAStreptococcus pneumoniae 223tcttgaaggt gactctaaat acgaaga 2722426DNAStreptococcus pneumoniae 224gttgatgagt atatcccaga accaga 2622522DNAStreptococcus pneumoniae 225ttccagtcga ggacgtattc tc 2222621DNAStreptococcus pneumoniae 226aatcactgga cgtggtacag t 2122724DNAStreptococcus mutans 227ttcccaggtg atgatattcc agtt 2422828DNAStreptococcus mutans 228gatactgctc aagaagatat catcatgg 2822923DNAStreptococcus mutans 229cgttggtatc cgtgatgaca ttc 2323027DNAStreptococcus mutans 230gtaaacaatt ggatgaaggt attgcag 2723124DNAStreptococcus mutans 231ggataatgtt ggtgttctcc ttcg 2423228DNAStreptococcus mutans 232ggttcaattc acccacatac taaattca 2823322DNAStreptococcus mutans 233gttcaattga gttgccagca gg 2223429DNAStreptococcus mutans 234tcatacacca ttcttcaata actatcgtc 2923523DNAStreptococcus mutans 235tcaggacgta ttgatcgtgg tac 2323625DNAStreptococcus sanguis 236ggtgttaaac acttgatcgt cttca 2523721DNAStreptococcus sanguis 237ccgtaaacag cttgacgaag g 2123820DNAStreptococcus sanguis 238tgtgcttctc cgtggtatcc 2023930DNAStreptococcus sanguis 239acactaaatt caagggtgaa gtttatatcc 3024018DNAStreptococcus sanguis 240aagaaggcgg acgtcaca 1824127DNAStaphylococcus aureus 241gttgacatgg ttgacgatga agaatta 2724221DNANeisseria meningitidis 242cgcggttact ttggaagaag g 2124320DNANeisseria meningitidis 243aaactgctgg acgaaggtca 2024423DNANeisseria meningitidis 244tacgtactga gcaaagaaga ggg 2324519DNANeisseria meningitidis 245tcttcgccaa ctaccgtcc 1924619DNABordetella pertussis 246caagccgggt tcgatcaac 1924723DNABordetella pertussis 247gaggtgtaca ttctgtccaa gga 2324821DNABordetella pertussis 248cgttcttcaa cggctatcgt c 2124920DNABordetella pertussis 249gacaaggaaa tggtgctgcc 2025020DNABordetella pertussis 250caacgtgggt atcttgctgc 2025118DNABordetella pertussis 251tgactggccg tatcgagc 1825230DNAEnterococcus faecalis 252tggatatggt tgatgacgaa gaattattag 3025329DNAEnterococcus faecalis 253gtgacttatt atcagaatac gatttccca 2925425DNAFusobacterium nucleatum 254actgaatatg gattcccagg agatg 2525526DNAFusobacterium nucleatum 255acatccctgt aattagaggt tcatca 2625631DNAFusobacterium nucleatum 256ggtgaagaaa aatggataga aaagataatg g 3125729DNAFusobacterium nucleatum 257acttatggat gcagtagata gctatatcc 2925826DNAFusobacterium nucleatum 258gaaagagcag tagatcaacc attctt 2625928DNAFusobacterium nucleatum 259aggaatcatc aaagttggag aagaaatt 2826030DNAFusobacterium nucleatum 260taaacctaca actaaaacaa cttgtacagg 3026123DNAFusobacterium nucleatum 261cttcttgatc aaggtcaagc agg 2326230DNAFusobacterium nucleatum 262aagaggaact aagaaagaag aagttgaaag 3026324DNAFusobacterium nucleatum 263cttgctaaac caggaagtat ccac 2426421DNAStenotrophomonas maltophilia 264aatacgaatc cccgatccgt c 2126521DNAStenotrophomonas maltophilia 265actgctgagc aagtacgagt t 2126619DNAStenotrophomonas maltophilia 266atcctgaagc tggtcgacg 1926721DNAStenotrophomonas maltophilia 267gatcaaggtt ggcgacgaaa t 2126820DNAStenotrophomonas maltophilia 268tgtacgtcct gtcgaaggac 2026919DNABurkholderia cepacia 269acgccgatca tcaagggtt 1927019DNABurkholderia cepacia 270cgatcatgaa cctggccga 1927118DNABurkholderia cepacia 271acgtcggtat cctgctgc 1827218DNABurkholderia cepacia 272gaagccgggt tcgatcac 1827322DNABurkholderia cepacia 273cgttcttcaa caactaccgt cc 2227417DNABurkholderia cepacia 274gtggtgacgg gtcgtgt 1727517DNABurkholderia cepacia 275cgtacatccc gacgccg 1727622DNACorynebacterium diphtheriae 276aacaagtgcg acatggttga tg 2227722DNACorynebacterium diphtheriae 277aagaggctcc aatcatccac at 2227820DNACorynebacterium diphtheriae 278gaagtggacc cagtccatca 2027920DNACorynebacterium diphtheriae 279ctgaaggtca acgaggacgt 2028019DNACorynebacterium diphtheriae 280ttctcgacta caccgaggc 1928122DNACorynebacterium diphtheriae 281gttgttgtta agccaggcgc tt 2228221DNACorynebacterium diphtheriae 282gagttcgagg gctctgtcta c 2128323DNAChlamydophila pneumoniae 283cgcttctcac gttgaatacg aaa 2328421DNAChlamydophila pneumoniae 284acatatcttg ctagctcgcc a 2128529DNAChlamydophila pneumoniae 285tagatatgat ctctcaagaa gatgctgaa 2928624DNAChlamydophila pneumoniae 286aagaaaaagg ctacaaagga tgcc 2428730DNAChlamydophila pneumoniae 287ttgaaggtga tgcaaattat atcgaaaaag 3028823DNAChlamydophila pneumoniae 288ttcgagaact tatgcaagct gtg 2328930DNAChlamydophila pneumoniae 289tggaatcgtt aaagtttctg ataaagttca 3029028DNAChlamydophila pneumoniae 290ggagagacta aagaaacaat cgttactg 2829126DNAChlamydophila pneumoniae 291gaaaacgttg gtttactcct cagagg 2629224DNAChlamydophila pneumoniae 292ttgaaagagg tatggtggtt tgtc 2429326DNAChlamydophila pneumoniae 293cagctgttta cgttcttcag aaagaa 2629423DNAChlamydophila pneumoniae 294caggagtcgt aactcttcct gaa 2329527DNALegionella pneumophila 295atgaccctga gttattagag ttagtgg 2729626DNALegionella pneumophila 296gtgcgagatt tattaagcag ttacga 2629722DNALegionella pneumophila 297tgttggttca gctttgaaag ca 2229826DNAlegionella pneumophila 298ttggaaggtg aagacagtga tatagg 2629926DNALegionella pneumophila 299ttcatacatt cctgagccag ttagaa 2630019DNALegionella pneumophila 300tttctggacg cggaacagt 1930126DNALegionella pneumophila 301aagttggtga ggaagttgaa attgtt 2630220DNALegionella pneumophila 302gatgaaggtc gagctggtga 2030326DNALegionella pneumophila 303ggataccgtc cacaattcta tttcag 2630422DNALegionella pneumophila 304catcaagcca cacaccaagt tt 2230528DNALegionella longbeachiae 305aggtacaatt aagcctcaca ctaaattt 2830630DNALegionella longbeachiae 306cggaagtata cgtgttatct aaagaagaag 3030731DNALegionella longbeachiae 307atagaccaca gttttatttt agaacaacag a 3130826DNALegionella longbeachiae 308tatagcaaaa gcatacgatc agatcg 2630922DNALegionella longbeachiae 309gaggcatcac aatctcaaca gc 2231021DNALegionella longbeachiae 310tattggggtg ccagcaatag a 2131129DNALegionella longbeachiae 311attcttatat tccagagcct gtaagaaac 2931229DNALegionella longbeachiae 312attgacaaat cgttcttatt accgattga 2931325DNALegionella longbeachiae 313aattcgtgat actgcaaaga ctacc 2531426DNALegionella longbeachiae 314ggtatattac tccgtggaac aaaacg 2631523DNALegionella longbeachiae 315agttattaga cgaaggacgt gca 2331624DNAHaemophilus influenzae 316tagtagtagc agcaacagat ggtc 2431725DNAHaemophilus influenzae 317atcttattag gtcgccaagt aggtg 2531830DNAHaemophilus influenzae 318ccatacatca tcgtattctt aaacaaatgc 3031921DNAHaemophilus influenzae 319cgttaaacgg cgtagcagaa t 2132027DNAHaemophilus influenzae 320aaatccttga gttagcaaac cacttag 2732120DNAHaemophilus influenzae 321aaccagaacg tgcgattgac 2032223DNAMoraxella catarrhalis 322cgactctgca cctgaagaaa aag 2332330DNAMoraxella catarrhalis 323ggtattacta ttaacacatc tcacatcgag 3032424DNAMoraxella catarrhalis 324tatgacacag aagctcgtca ctac 2432521DNAMoraxella catarrhalis 325tggttgtttc tgcaactgac g 2132622DNAMoraxella catarrhalis 326atcctactgt ctcgtcaggt tg 2232729DNAMoraxella catarrhalis 327atatatcatg gtattcatga acaagtgcg 2932826DNAMoraxella catarrhalis 328gcattgaatg gttctgacgg taaata 2632925DNAMoraxella catarrhalis 329tgctgttcta gaactactag acacg 2533020DNAMycoplasma pneumoniae 330attaactccg ctcacgtgga 2033126DNAMycoplasma pneumoniae 331ttctagtagt ttcagcaact gacagt 2633224DNAMycoplasma pneumoniae 332ttcctaaaca agtgtgacat tgca 2433327DNAMycoplasma pneumoniae 333actgatgaag aagtgcaaga gttagta 2733422DNAMycoplasma pneumoniae 334ttacggcttt gatggcaaga ac 2233523DNAMycoplasma pneumoniae 335ttatggttct gcacttaaag cgc 2333625DNAMycoplasma pneumoniae 336tgatcctaag tgggaagcta agatc 2533730DNAMycoplasma pneumoniae 337gatttaatga atgcagttga tgaatggatt 3033824DNAMycoplasma pneumoniae 338gaacgtggtg aattgaaagt aggt 2433924DNAMycoplasma pneumoniae 339gtccaatccg taaagcagtt gtta 2434023DNAMycoplasma pneumoniae 340aaggaacttg attcagcaat ggc 2334122DNAMycoplasma pneumoniae 341gtggaccgta aagaagtgga ac 2234223DNAMycoplasma pneumoniae 342taaaccaggt tcgattaaac cgc 2334325DNAMycoplasma pneumoniae 343tactacagac gttactggtt cgatt 2534420DNAMycoplasma pneumoniae 344gctgctactc gttacgacca 2034515DNAMycobacterium tuberculosis 345acaacgcccc cgagg 1534614DNAMycobacterium tuberculosis 346acgcccctgg ccac 1434718DNAMycobacterium tuberculosis 347gatggacggt gcgatcct 1834816DNAMycobacterium tuberculosis 348cccgatgccc cagacc 1634917DNAMycobacterium tuberculosis 349gagcacgttc tgctggc 1735019DNAMycobacterium tuberculosis 350atcctggtag cgctgaaca 1935117DNAMycobacterium tuberculosis 351gacgcagtgg acgacga 1735218DNAMycobacterium tuberculosis 352ggctgcccag gaattcga 1835315DNAMycobacterium tuberculosis 353ccccggttgt gcggg 1535418DNAMycobacterium tuberculosis 354tgggttgcct ctgtcgag 1835519DNAMycobacterium tuberculosis 355aggaactgat gaacgcggt 1935618DNAMycobacterium tuberculosis 356cgagtcgatt ccggaccc 1835717DNAMycobacterium tuberculosis 357cattaccggc cgcggaa 1735817DNAMycobacterium tuberculosis 358gtcaccggac gtgtgga 1735921DNAMycobacterium tuberculosis 359acgaggaagt tgagatcgtc g 2136017DNAMycobacterium tuberculosis 360ttcgcccatc gaccacc 1736119DNAMycobacterium tuberculosis 361acaacgttgg tttgctgct 1936218DNAMycobacterium tuberculosis 362cgagttcgaa ggccaggt 1836317DNAMycobacterium tuberculosis 363gtggtgacac tgccgga 1736422DNAMycobacterium tuberculosis 364gacaaattcc ccgatctgaa cg 2236520DNAMycobacterium tuberculosis 365aacgagacga aggcattcga 2036617DNASerratia marcescens 366gttctgcacg tgctttc 1736718DNASerratia marcescens 367ggttggcgtt cctttcat 1836816DNASerratia marcescens 368acctgccagt gatccg 1636917DNASerratia marcescens 369tggacagcta catccca 1737020DNASerratia marcescens 370agacaccgtt aagtctacct 2037119DNASerratia marcescens 371taaaccaggc tccatcaag 1937219DNASerratia marcescens 372tcctgagcaa agatgaagg 1937317DNASerratia marcescens 373gaaggtggtc gtcacac 1737419DNASerratia marcescens 374gacaacgtga acatggttg 1937516DNASerratia marcescens 375acgtgaccgg taccat 1637617DNASerratia marcescens 376tcctggtagt agctgcg 1737719DNASerratia marcescens 377caaagttggc gaagaagtt 1937817DNAKlebsiella pneumoniae 378atcctggttg ttgctgc 1737918DNAKlebsiella pneumoniae 379gtaggcgttc cgtacatc 1838016DNAKlebsiella pneumoniae 380acaccccgat cgttcg 1638120DNAKlebsiella pneumoniae 381cctggatacc tatatcccgg 2038222DNAKlebsiella pneumoniae 382atcaaagtag gtgaagaagt tg 2238316DNAKlebsiella pneumoniae 383accgcgaaaa ccacct 1638416DNAKlebsiella pneumoniae 384taagccgggc accatc 1638518DNAKlebsiella pneumoniae 385tcctgtccaa agacgaag 1838616DNAKlebsiella pneumoniae 386gaaggcggcc gtcata

1638719DNAKlebsiella pneumoniae 387ggcgacaaca tcaaaatgg 1938817DNAArtificial SequencePrimer 388carttctwyt tcmghac 1738920DNAARTIFICIAL SEQUENCEPrimer 389aargahgarg gygghcgkca 2039017DNAARTIFICIAL SEQUENCEPrimer 390garatggtnm trccngg 1739121DNAARTIFICIAL SEQUENCEPrimer 391agtttgatgc agaagtatac g 2139221DNAARTIFICIAL SEQUENCEPrimer 392tatcctacta cgtggtacta a 2139318DNAARTIFICIAL SEQUENCEPrimer 393ataacgttga gatgagcg 1839420DNAartificialPrimer directed at all tuf genes 394cacgttgacc ayggyaarac 2039520DNAartificialPrimer directed at all tuf genes 395gtdcgdccrc cytcwcgrat 2039620DNAARTIFICIALPrimer directed at all tuf genes 396kyacngghgt bgaratgttc 2039747DNAMycoplasma pneumoniae 397atggcaaaac aaaagtttga tagatcaaaa gctcacgtta atattgg 4739847DNAMycoplasma pneumoniae 398atggcaagag agaaatttga ccgatctaaa ccccacgtta atgtagg 4739960DNALegionella pneumophila 399gggagacttt ccgatggcga aggaaaaatt tgaacgtaag aagccgcacg taaacgtggg 6040047DNALegionella pneumophila 400atggcgaagg aaaaatttga acgtaagaag ccgcacgtaa acgtggg 4740147DNALegionella pneumophila 401atggcgaagg aaaaatttga acgtaagaag ccgcacgtaa acgtggg 4740247DNAChlamydophila pneumoniae 402atgtcaaaag aaacttttca acgtaataag ccccatatca atattgg 4740347DNAEnterococcus faecalis 403atggcaaaag aaaaatttga ccgttctaaa tcccatgtta acattgg 4740447DNAStaphylococcus aureus 404atggcaaaag aaaaattcga tcgttctaaa gaacatgcca atatcgg 4740547DNAStaphylococcus aureus 405atggcaaaag aaaaattcga tcgttctaaa gaacatgcca atatcgg 4740647DNAStaphylococcus aureus 406atggcaaaag aaaaattcga tcgttctaaa gaacatgcca atatcgg 4740747DNAStaphylococcus aureus 407atggcaaaag aaaaattcga tcgttctaaa gaacatgcca atatcgg 4740847DNAStaphylococcus aureus 408atggcaaaag aaaaatttga tcgttctaaa gaacatgcca atatcgg 4740947DNAStaphylococcus epidermidis 409atggcaaaag aaaaatttga tcgctcaaaa gaacatgcca atattgg 4741047DNAStaphylococcus epidermidis 410atggcaaaag aaaaatttga tcgctcaaaa gaacatgcca atattgg 4741147DNAStreptococcus mitis 411atggcaaaag aaaaatacga tcgtagtaaa ccacacgtta acattgg 4741247DNAStreptococcus pneumoniae 412atggcaaaag aaaaatacga tcgtagtaaa ccacacgtta acattgg 4741347DNAStreptococcus pyogenes 413atggcaaaag aaaaatacga tcgtagtaaa ccccacgtta acattgg 4741447DNAStreptococcus mutans 414atggcaaaag aaaaatacga tcgtagtaaa ccacacgtta acattgg 4741547DNAHaemophilus influenzae 415atgtctaaag aaaaatttga acgtacaaaa ccgcacgtaa acgtggg 4741647DNABordetella pertussis 416atggcaaaag gcaagtttga acgtaccaag ccgcacgtga acgtggg 4741747DNABordetella parapertussis 417atggcaaaag gcaagtttga acgtaccaag ccgcacgtga acgtggg 4741847DNABurkholderia pseudomallei 418atggcaaaag agaagtttga gcggaccaag ccgcacgtga acgttgg 4741947DNAPseudomonas aeruginosa 419gtggctaagg aaaaattcga acgtaacaaa ccgcacgtca acgtcgg 4742047DNAMycobacterium avium 420gtggcgaagg cgaagttcga gcggacgaag ccgcacgtca acatcgg 4742147DNAMycobacterium avium 421gtggcgaagg cgaagttcga gcggacgaag ccgcacgtca acatcgg 4742247DNAMycobacterium tuberculosis 422gtggcgaagg cgaagttcca gcggaccaag ccccacgtca acatcgg 4742347DNAMycobacterium tuberculosis 423gtggcgaagg cgaagttcca gcggaccaag ccccacgtca acatcgg 4742447DNACorynebacterium diphtheriae 424gtggcaaagg ctaagttcga gcgtaccaag ccgcacgtca acatcgg 4742547DNANeisseria meningitidis 425atggctaagg aaaaattcga acgtagcaaa ccgcacgtaa acgttgg 4742647DNANeisseria meningitidis 426atggctaagg aaaaattcga acgtagcaaa ccgcacgtaa acgttgg 4742760DNAMycoplasma pneumoniae 427gacaattgga catattgacc atggtaaaac aactttaaca gctgcaatct gtacttacct 6042860DNAMycoplasma pneumoniae 428tactattggc cacattgacc acggtaaaac aactttaaca gcagctattt gtactgtatt 6042960DNALegionella pneumophila 429cacgattggt cacgtagacc atggcaagac gacattgaca gcagctatta caacgattat 6043060DNALegionella pneumophila 430cacgattggt cacgtagacc atggtaagac gacattgaca gcagctatta caacgattat 6043160DNALegionella pneumophila 431cacgattggt cacgtagacc atggtaagac gacattgaca gcagctatta caacgattat 6043260DNAChlamydophila pneumoniae 432gacgatcggg cacgttgacc atggtaaaac tacgctaaca gcggcaatta cacgcgcgct 6043360DNAEnterococcus faecalis 433tactatcgga cacgttgacc atggtaaaac tacattaaca gctgcaattg ctactgtatt 6043460DNAStaphylococcus aureus 434tactatcggt cacgttgacc atggtaaaac aacattaaca gcagcaatcg ctactgtatt 6043560DNAStaphylococcus aureus 435tactatcggt cacgttgacc atggtaaaac aacattaaca gcagcaatcg ctactgtatt 6043660DNAStaphylococcus aureus 436tactatcggt cacgttgacc atggtaaaac aacattaaca gcagcaatcg ctactgtatt 6043760DNAStaphylococcus aureus 437tactatcggt cacgttgacc atggtaaaac aacattaaca gcagcaatcg ctactgtatt 6043860DNAStaphylococcus aureus 438tactatcggt cacgttgacc atggtaaaac aacattaaca gcagcaatcg ctactgtatt 6043960DNAStaphylococcus epidermidis 439tactatcggt cacgttgacc atggtaaaac aactttaaca gctgctatcg caactgtatt 6044060DNAStaphylococcus epidermidis 440tactatcggt cacgttgacc atggtaaaac aactttaaca gctgctatcg caactgtatt 6044110DNAStreptococcus sanguis 441cccctgtatt 1044260DNAStreptococcus mitis 442tactatcgga cacgttgacc acggtaaaac tactttgaca gcagctatca caactgtttt 6044360DNAStreptococcus pneumoniae 443tactatcgga cacgttgacc acggtaaaac taccctaact gcagctatca caactgtttt 6044460DNAStreptococcus pyogenes 444tacaatcgga cacgttgacc atggtaaaac tactttaaca gctgcaatca caactgtatt 6044510DNAStreptococcus mutans 445cccctgtact 1044660DNAStreptococcus mutans 446tactatcgga cacgttgacc atggtaaaac taccttaact gcagctatca caactgtact 6044760DNAHaemophilus influenzae 447tacaatcggc cacgttgacc acggtaaaac aactttaaca gcagcaatca caaccgtatt 6044860DNABordetella pertussis 448tacgattggt cacgttgacc acggcaaaac gacgttgacg gcggcgatca cgacggtgct 6044960DNABordetella parapertussis 449tacgattggt cacgttgacc acggcaaaac gacgttgacg gcggcgatca cgacggtgct 6045060DNABurkholderia pseudomallei 450tacgattggt cacgttgacc acggcaagac gacgctgacg gcagcgatcg cgacggtgct 6045113DNAStenotrophomonas maltophilia 451tgacaagatc ggt 1345260DNAPseudomonas aeruginosa 452caccatcggt cacgttgacc atggcaagac cactctgacc gctgcactga ccaaggtctg 6045360DNAMycobacterium avium 453gaccatcggt cacgttgacc acggcaagac cacgctgacc gcggctatca ccaaggttct 6045460DNAMycobacterium avium 454gaccatcggt cacgttgacc acggcaagac cacgctgacc gcggctatca ccaaggttct 6045510DNAMycobacterium intracellulare 455ccccccccct 1045610DNAMycobacterium kansasii 456ccaaggtcct 1045760DNAMycobacterium tuberculosis 457gaccatcggt cacgttgacc acggcaagac caccctgacc gcggctatca ccaaggtcct 6045860DNAMycobacterium tuberculosis 458gaccatcggt cacgttgacc acggcaagac caccctgacc gcggctatca ccaaggtcct 6045960DNACorynebacterium diphtheriae 459caccatcggt cacgttgacc acggtaagac caccaccacc gctgctatca ccaaggtttt 6046060DNANeisseria meningitidis 460caccatcggt cacgttgacc atggtaaaac caccctgact gccgctttga ctactatttt 6046160DNANeisseria meningitidis 461caccatcggt cacgttgacc atggtaaaac caccctgact gccgctttga ctactatttt 6046251DNAMycoplasma pneumoniae 462tgcaaaaaaa ggtggtgcta aagcaatgaa atatgatgaa attgataaag c 5146351DNAMycoplasma pneumoniae 463agcaaaagaa ggtaaatcag ctgctactcg ttacgaccaa atcgataagg c 5146451DNALegionella pneumophila 464ggcgaagaaa tatggtggta cagcgaaggc gtacgatcaa attgatgctg c 5146541DNALegionella pneumophila 465tatggtggta cagcgaaggc gtacgatcaa attgatgctg c 4146651DNALegionella pneumophila 466ggcgaagaaa tatggtggta cagcgaaggc gtacgatcaa attgatgctg c 5146751DNALegionella pneumophila 467ggcgaagaaa tatggtggta cagcgaaggc gtacgatcaa attgatgctg c 5146842DNALegionella longbeachae 468gtttggtggt atagcaaaag catacgatca gatcgatgct gc 4246936DNAFusobacterium nucleatum 469agctaaaaaa gtagattttg accaaattga tgctgc 3647051DNAChlamydophila pneumoniae 470atcaggggat ggattggcct ctttccgtga ctatagttca attgacaata c 5147135DNAEnterococcus faecalis 471gggaaagcac aaagctacga ttctatcgat aacgc 3547251DNAEnterococcus faecalis 472atcaaaacac ggtggcgggg aagcacaaag ctacgattct atcgataacg c 5147351DNAStaphylococcus aureus 473agcaaaaaat ggtgactcag ttgcacaatc atatgacatg attgacaacg c 5147451DNAStaphylococcus aureus 474agcaaaaaat ggtgactcag ttgcacaatc atatgacatg attgacaacg c 5147551DNAStaphylococcus aureus 475agcaaaaaat ggtgactcag ttgcacaatc atatgacatg attgacaacg c 5147651DNAStaphylococcus aureus 476agcaaaaaat ggtgactcag ttgcacaatc atatgacatg attgacaacg c 5147751DNAStaphylococcus aureus 477agcaaaaaat ggtgactcag ttgcacaatc atacgacatg attgacaacg c 5147851DNAStaphylococcus epidermidis 478agctaaaaat ggtgacactg ttgcacaatc atacgatatg attgacaacg c 5147951DNAStaphylococcus epidermidis 479agctaaaaat ggtgacactg ttgcacaatc atacgatatg attgacaacg c 5148026DNAStreptococcus mitis 480aaagactatg cgtctatcga tgctgc 2648160DNAStreptococcus sanguis 481ggcacgtcgc ttgccttcag cagttaacca acctaaagac tatgcgtcta tcgatgctgc 6048260DNAStreptococcus mitis 482ggcacgtcgc ttgccttcag ctgttaacca acctaaagac tatgcgtcta tcgatgctgc 6048360DNAStreptococcus pneumoniae 483ggcacgtcgc ttgccttcat cagttaacca acctaaagac tatgcgtcta tcgatgctgc 6048460DNAStreptococcus pyogenes 484ggcacgtcgc ttgccttcat cagttaacca accaaaagat tacgcttcta tcgatgctgc 6048560DNAStreptococcus mutans 485ggcacgtcgt cttccaagtg cagtaaacca accaaaagat tattcatcta ttgatgctgc 6048660DNAStreptococcus mutans 486ggcacgtcgt cttccaagtg cagtaaacca accaaaagat tattcatcta ttgatgctgc 6048751DNAHaemophilus influenzae 487agcaaaacac tacggtggtg cagcgcgtgc atttgaccaa attgataacg c 5148810DNAMoraxella catarrhalis 488cgactctgcc 1048951DNABordetella pertussis 489gtcgaacaag ttcggcggcg aggctcgcgg ctacgaccag attgacgcgg c 5149051DNABordetella parapertussis 490gtcgaacaag ttcggcggcg aggctcgcgg ctacgaccag attgacgcgg c 5149142DNABurkholderia cepacia 491gttcggcggc gaagcgaaga agtacgacga aatcgacgcg gc 4249251DNABurkholderia pseudomallei 492gtcggcgaag ttcggcggcg aagcgaagaa gtacgacgaa atcgacgcgg c 5149350DNAStenotrophomonas maltophilia 493gccgagcgct tcggtggcga gttcaaggac tactcctcga tcgacgccgc 5049451DNAPseudomonas aeruginosa 494ctccgatacc tggggtggtt ccgctcgtgc tttcgatcag atcgacaacg c 5149542DNAKlebsiella pneumoniae 495ctacggtggt tccgctcgcg cattcgacca gatcgataac gc 4249657DNAMycobacterium avium 496gcacgacaag tacccggacc tgaacgagtc ccgcgcgttc gaccagatcg acaacgc 5749757DNAMycobacterium avium 497gcacgacaag tacccggacc tgaacgagtc ccgcgcgttc gaccagatcg acaacgc 5749857DNAMycobacterium intracellulare 498gcacgacaag tacccggacc tgaacgagtc ccgcgcgttc gaccagatcg acaacgc 5749957DNAMycobacterium kansasii 499gcatgacaag ttcccggacc tgaacgagtc gaaggcgttc gaccagatcg acaacgc 5750057DNAMycobacterium tuberculosis 500gcacgacaaa ttccccgatc tgaacgagac gaaggcattc gaccagatcg acaacgc 5750157DNAMycobacterium tuberculosis 501gcacgacaaa ttccccgatc tgaacgagac gaaggcattc gaccagatcg acaacgc 5750210DNAMycobacterium avium 502aaaaaaacgc 1050357DNACorynebacterium diphtheriae 503ggcagacgct tacccagagc tgaacgaagc tttcgctttc gatgccatcg ataaggc 5750451DNANeisseria meningitidis 504ggctaaaaaa ttcggcggtg ctgcaaaagc ttacgaccaa atcgacaacg c 5150551DNANeisseria meningitidis 505ggctaaaaaa ttcggcggtg ctgcaaaagc ttacgaccaa atcgacaacg c 5150660DNAMycoplasma pneumoniae 506acctgaagaa aaagctagag gtattactat taatactgct cacgttgaat atgaaacaga 6050760DNAMycoplasma pneumoniae 507tccggaagaa aaagcacggg gaattacgat taactccgct cacgtggagt actcctctga 6050860DNALegionella pneumophila 508gccagaagaa agagagcgtg gtattactat ttctacagca cacgttgagt acgaatcagc 6050960DNALegionella pneumophila 509gccagaagaa agagagcgtg ggattactat ttctacagca catgttgaat acgaatcagc 6051060DNALegionella pneumophila 510gccagaagaa agagagcgtg ggattactat ttctacagca catgttgaat acgaatcagc 6051160DNALegionella pneumophila 511gccagaagaa agagagcgtg gtattactat atctacagcc catgttgaat acgaatcagc 6051260DNALegionella longbeachiae 512accagaagaa agagagcgag gcatcacaat ctcaacagcg cacgttgaat acgaatcagc 6051360DNAFusobacterium nucleatum 513tccagaagaa aaagaaagag gaattactat taatacagct catattgaat atgaaacagc 6051460DNAChlamydophila pneumoniae 514tccagaagaa aaggctcgtg gaattactat caacgcttct cacgttgaat acgaaacccc 6051560DNAEnterococcus faecalis 515tccagaagaa aaagaacgtg gaatcacaat caacacttct catatcgaat atgaaactga 6051660DNAEnterococcus faecalis 516tccagaagaa aaagaacgtg gaatcacaat caacacttct catatcgaat atgaaactga 6051760DNAStaphylococcus aureus 517tccagaagaa aaagaacgtg gtatcacaat caatacttct cacattgagt accaaactga 6051860DNAStaphylococcus aureus 518tccagaagaa aaagaacgtg gtatcacaat caatacttct cacattgagt accaaactga 6051960DNAStaphylococcus aureus 519tccagaagaa aaagaacgtg gtatcacaat caatacttct cacattgagt accaaactga 6052060DNAStaphylococcus aureus 520tccagaagaa aaagaacgtg gtatcacaat caatacttct cacattgagt accaaactga 6052160DNAStaphylococcus aureus 521tccagaagaa aaagaacgtg gtatcacaat caatacttca cacattgagt accaaactga 6052260DNAStaphylococcus epidermidis 522tccagaagaa aaagaacgtg gtattacaat caatactgca catatcgaat accaaactga 6052360DNAStaphylococcus epidermidis 523tccagaagaa aaagaacgtg gtattacaat caatactgca catatcgaat accaaactga 6052460DNAStreptococcus mitis 524tccagaagaa cgcgaacgcg gtatcactat caacactgcg cacgttgagt acgaaactga 6052560DNAStreptococcus sanguis 525tccagaagaa cgcgaacgcg gaatcactat caacactgcg cacgttgagt atgaaactgc 6052660DNAStreptococcus mitis 526tccagaagaa cgcgaacgtg gtatcacaat caacactgcg cacgttgagt acgaaactga 6052760DNAStreptococcus pneumoniae 527tccagaagaa cgcgaacgcg gtatcactat caacactgcg cacgttgagt acgaaactga 6052860DNAStreptococcus pyogenes 528tccagaagaa cgcgaacgcg gaatcactat caacactgca cacgttgagt acgaaactgc 6052960DNAStreptococcus mutans 529tcctgaagaa cgcgaacgcg gtatcactat caatactgcg cacgttgagt atgaaactga 6053060DNAStreptococcus mutans 530tcctgaagaa cgcgaacgcg gtatcactat caatactgcg cacgttgagt atgaaactga 6053160DNAHaemophilus influenzae 531gccagaagaa aaagcgcgtg gtattaccat caacacttca cacgttgaat acgatacacc 6053260DNAMoraxella catarrhalis 532acctgaagaa aaagcacgtg gtattactat taacacatct cacatcgagt atgacacaga 6053360DNABordetella pertussis 533gccggaagag aaggcgcgtg ggatcacgat caacacctcg cacgttgagt acgagacgga 6053460DNABordetella parapertussis 534gccggaagag aaggcgcgtg ggatcacgat caacacctcg cacgttgagt acgagacgga 6053560DNABurkholderia cepacia 535gccggaagaa aaggcacgcg gcatcacgat caacaccgcg cacatcgagt acgaaacggc 6053660DNABurkholderia pseudomallei 536gccggaagaa aaggcgcgcg gcatcacgat caacaccgcg cacatcgagt acgaaacggc 6053760DNAStenotrophomonas maltophilia 537gccggaagaa aaggctcgtg gtatcacgat ctcgaccgcg cacgtcgaat acgaatcccc 6053860DNAPseudomonas aeruginosa 538gccggaagaa aaggcccgcg gtatcaccat caacacctcg cacgttgaat acgattccgc 6053960DNAKlebsiella pneumoniae 539gccggaagaa aaagctcgtg gtatcaccat caacacctct cacgttgaat atgacacccc 6054060DNAMycobacterium avium 540gcccgaggag cgtcagcgcg gtatcaccat caacatctcc cacgtggagt accagaccga 6054160DNAMycobacterium avium 541gcccgaggag cgtcagcgcg gtatcaccat caacatctcc cacgtggagt accagaccga 6054260DNAMycobacterium intracellulare 542tcccgaggag cgtcagcgcg gtatcacgat caacatctcc cacgtggagt accagaccga 6054360DNAMycobacterium kansasii 543tcctgaggag cgccagcgcg gtatcacgat caacatcgcg cacgtggagt accagaccga 6054460DNAMycobacterium tuberculosis 544ccccgaggag cgtcagcgcg gtatcaccat caacatcgcg cacgtggagt accagaccga 6054560DNAMycobacterium tuberculosis 545ccccgaggag cgtcagcgcg gtatcaccat caacatcgcg cacgtggagt accagaccga 6054660DNAMycobacterium avium 546gcctgaagag cgtcagcgcg gtatcaccat caacatctcg catgttgagt accagaccga 6054760DNACorynebacterium diphtheriae 547accggaagag aaagagcgtg gtattaccat caacatctcc cacgtggagt accagaccga 6054860DNANeisseria meningitidis 548acccgaagaa aaagcacgcg gtattaccat taacacctcg cacgtggaat acgaaaccga 6054960DNANeisseria meningitidis 549acccgaagaa aaagcacgcg gtattaccat taacacctcg cacgtggaat acgaaaccga 6055059DNANeisseria meningitidis 550cccgaagaaa aagcacgcgg tattaccatt aacacctcgc acgtggaata cgaaaccga 5955160DNAMycoplasma pneumoniae 551aaacagacac tatgctcacg tagactgtcc

aggtcacgct gactacgtta agaacatgat 6055260DNAMycoplasma pneumoniae 552caagcgtcac tatgctcacg ttgactgtcc aggacacgct gactacatta agaacatgat 6055360DNALegionella pneumophila 553gagcagacat tatgcgcacg tagactgccc ggggcatgct gactatgtta agaacatgat 6055460DNALegionella pneumophila 554gagcagacat tatgcgcacg tagactgccc ggggcatgct gactatgtta agaacatgat 6055560DNALegionella pneumophila 555gagcagacat tatgcacacg tagactgccc gggacatgct gactatgtta agaacatgat 6055660DNALegionella pneumophila 556gagcagacat tatgcacacg tagactgccc gggacatgct gactatgtta agaacatgat 6055760DNALegionella longbeachiae 557gaacagacac tatgcgcatg ttgattgccc aggacatgct gactatgtga agaacatgat 6055860DNAFusobacterium nucleatum 558aaatagacac tatgctcacg ttgactgtcc agggcatgct gactatgtta aaaatatgat 6055960DNAChlamydophila pneumoniae 559aaatcgtcac tacgctcacg tagactgccc tggtcacgct gactatgtta aaaatatgat 6056060DNAEnterococcus faecalis 560aactcgtcac tatgcacacg ttgactgccc aggacacgcg gactacgtta aaaacatgat 6056160DNAEnterococcus faecalis 561aactcgtcac tatgcacacg ttgactgccc aggacatgcg gactacgtta aaaacatgat 6056260DNAStaphylococcus aureus 562caaacgtcac tacgctcacg ttgactgccc aggacacgct gactacgtta aaaacatgat 6056360DNAStaphylococcus aureus 563caaacgtcac tacgctcacg ttgactgccc aggacacgct gactacgtta aaaacatgat 6056460DNAStaphylococcus aureus 564caaacgtcac tacgctcacg ttgactgccc aggacacgct gactacgtta aaaacatgat 6056560DNAStaphylococcus aureus 565caaacgtcac tacgctcacg ttgactgccc aggacacgct gactacgtta aaaacatgat 6056660DNAStaphylococcus aureus 566caaacgtcac tacgctcacg ttgactgccc aggacacgct gactatgtta aaaacatgat 6056760DNAStaphylococcus epidermidis 567caaacgtcac tatgctcacg ttgactgccc aggacacgct gactatgtta aaaacatgat 6056860DNAStaphylococcus epidermidis 568caaacgtcac tatgctcacg ttgactgccc aggacacgct gactatgtta aaaacatgat 6056960DNAStreptococcus mitis 569aaaacgtcac tacgctcaca tcgacgctcc aggacacgcg gactacgtta aaaacatgat 6057060DNAStreptococcus sanguis 570taagcgtcac tacgctcaca tcgacgctcc aggacacgcg gactacgtta aaaacatgat 6057160DNAStreptococcus mitis 571aaaacgtcac tacgctcaca tcgacgctcc aggacacgcg gactatgtta aaaacatgat 6057260DNAStreptococcus pneumoniae 572aaaacgtcac tacgctcaca tcgacgctcc aggacacgcg gactacgtta aaaacatgat 6057360DNAStreptococcus pyogenes 573aactcgtcac tatgcgcaca tcgacgctcc aggacacgcg gactacgtta aaaacatgat 6057460DNAStreptococcus mutans 574aaaacgtcac tatgctcaca ttgacgctcc aggacacgcg gactatgtta aaaacatgat 6057560DNAStreptococcus mutans 575aaaacgtcac tatgctcaca ttgatgctcc aggacacgcg gactatgtta aaaacatgat 6057660DNAHaemophilus influenzae 576gactcgccac tacgcacacg tagactgtcc gggacacgcc gactatgtta aaaatatgat 6057760DNAMoraxella catarrhalis 577agctcgtcac tacgcacatg tagactgccc aggccacgct gactatgtta aaaacatgat 6057860DNABordetella pertussis 578gacgcgtcac tacgcgcacg ttgattgccc gggtcacgct gactacgtga agaacatgat 6057960DNABordetella parapertussis 579gacgcgtcac tacgcgcacg ttgattgccc gggtcacgct gactacgtga agaacatgat 6058060DNABurkholderia cepacia 580gaaccgccac tacgcgcacg tcgactgccc gggccacgcc gactacgtga agaacatgat 6058160DNABurkholderia pseudomallei 581gaaccgccac tacgcacacg tggactgccc gggccacgcc gactacgtga agaacatgat 6058260DNAStenotrophomonas maltophilia 582gatccgtcac tacgcccacg ttgactgccc gggccacgct gactacgtca agaacatgat 6058360DNAPseudomonas aeruginosa 583tgttcgtcac tacgcccacg ttgactgccc cggtcacgcc gactacgtga agaacatgat 6058460DNAKlebsiella pneumoniae 584gactcgccac tacgcgcacg tagactgccc gggccacgcc gactatgtta aaaacatgat 6058560DNAMycobacterium avium 585caagcggcac tacgctcacg tcgacgcccc gggtcacgcc gactacatca agaacatgat 6058660DNAMycobacterium avium 586caagcggcac tacgctcacg tcgacgcccc gggtcacgcc gactacatca agaacatgat 6058760DNAMycobacterium intracellulare 587caagcggcac tatgcccacg tcgacgcccc gggtcacgcc gactacatca agaacatgat 6058860DNAMycobacterium kansasii 588gaagcggcac tatgcacacg tcgacgcgcc gggccacgcc gactacatca agaacatgat 6058960DNAMycobacterium tuberculosis 589caagcggcac tacgcacacg tcgacgcccc tggccacgcc gactacatca agaacatgat 6059060DNAMycobacterium tuberculosis 590caagcggcac tacgcacacg tcgacgcccc tggccacgcc gactacatca agaacatgat 6059160DNAMycobacterium avium 591gaagcgccac tacgcacacg tggacgcccc cggccacgcg gactacatca agaacatgat 6059260DNACorynebacterium diphtheriae 592gaagcgccac tacgcacacg ttgacgctcc aggtcacgct gactacatca agaacatgat 6059360DNANeisseria meningitidis 593aacccgccac tacgcacacg tagactgccc ggggcacgcc gactacgtta aaaacatgat 6059460DNANeisseria meningitidis 594aacccgccac tacgcacacg tagactgtcc ggggcacgcc gactacgtta aaaacatgat 6059560DNANeisseria meningitidis 595aacccgccac tacgcacacg tagactgccc ggggcacgcc gactacgtta aaaacatgat 6059660DNAMycoplasma pneumoniae 596tactggtgct gctcaaatgg atggtgcaat cttagtagtt gctgcatctg atggaccaat 6059760DNAMycoplasma pneumoniae 597tactggtgct gcacaaatgg atggtgccat tctagtagtt tcagcaactg acagtgttat 6059860DNALegionella pneumophila 598tactggtgct gcgcaaatgg acggagcgat actggttgta tcagcagctg atggtcctat 6059960DNALegionella pneumophila 599tactggtgct gcgcaaatgg acggagcgat actggttgta tcagcagctg atggtcctat 6060060DNALegionella pneumophila 600tactggtgct gcgcaaatgg acggagcgat actggttgta tcagcagctg atggtcctat 6060160DNALegionella pneumophila 601tactggtgct gcgcaaatgg acggagcgat actggttgta tcagcagctg atggtcctat 6060260DNALegionella longbeachiae 602tacaggtgct gcacaaatgg acggagcgat acttgtagta tctgcagcag atggtcctat 6060360DNAFusobacterium nucleatum 603aactggtgct gcacaaatgg atggagctat acttgttgta tcagctgctg atggtcctat 6060460DNAChlamydophila pneumoniae 604tacaggcgcc gctcaaatgg acggagctat cctagtcgtt tcagctacag acggagctat 6060560DNAEnterococcus faecalis 605cactggtgct gctcaaatgg acggagctat cttagtagtt tctgctgctg atggtcctat 6060660DNAEnterococcus faecalis 606cactggtgct gctcaaatgg acggagctat cttagtagtt tctgctgctg atggtcctat 6060760DNAStaphylococcus aureus 607cactggtgct gctcaaatgg acggcggtat cttagtagta tctgctgctg acggtccaat 6060860DNAStaphylococcus aureus 608cactggtgct gctcaaatgg acggcggtat cttagtagta tctgctgctg acggtccaat 6060960DNAStaphylococcus aureus 609cactggtgct gctcaaatgg acggcggtat cttagtagta tctgctgctg acggtccaat 6061060DNAStaphylococcus aureus 610cactggtgct gctcaaatgg acggcggtat cttagtagta tctgctgctg acggtccaat 6061160DNAStaphylococcus aureus 611cactggtgct gctcaaatgg acggtggtat cttagtagta tctgctgctg acggtccaat 6061260DNAStaphylococcus epidermidis 612cactggtgca gctcaaatgg acggcggtat cttagttgta tctgctgctg acggtccaat 6061360DNAStaphylococcus epidermidis 613cactggtgca gctcaaatgg acggcggtat cttagttgta tctgctgctg acggtccaat 6061460DNAStreptococcus mitis 614cactggtgcc gctcaaatgg acggagctat ccttgtagta gcttcaactg acggaccaat 6061560DNAStreptococcus sanguis 615cactggtgcc gctcaaatgg acggagctat ccttgtagta gcttcaactg acggaccaat 6061660DNAStreptococcus mitis 616cactggtgcc gctcaaatgg acggagctat ccttgtagta gcttcaactg acggaccaat 6061760DNAStreptococcus pneumoniae 617cactggtgct gctcaaatgg acggagctat ccttgtagta gcttcaactg acggaccaat 6061860DNAStreptococcus pyogenes 618cactggtgcc gctcaaatgg acggagctat ccttgtagtt gcttcaactg atggaccaat 6061960DNAStreptococcus mutans 619tactggtgct gcccaaatgg atggtgctat ccttgtagta gcttcaactg atggtccaat 6062060DNAStreptococcus mutans 620cactggtgct gcccaaatgg atggtgctat ccttgtagta gcttcaactg atggaccaat 6062160DNAHaemophilus influenza 621tactggtgcg gcacaaatgg atggtgctat tttagtagta gcagcaacag atggtcctat 6062260DNAMoraxella catarrhalis 622cacaggtgct gcacagatgg acggcgcaat cttggttgtt tctgcaactg acggcccaat 6062360DNABordetella pertussis 623cacgggtgct gcgcagatgg acggcgcgat cctggtggtg tcggccgcag acggcccgat 6062460DNABordetella parapertussis 624cacgggtgct gcgcagatgg acggcgcgat cctggtggtg tcggccgcag acggcccgat 6062560DNABurkholderia cepacia 625cacgggtgca gcgcagatgg acggcgcaat cctggtgtgc tcggccgcag acggcccgat 6062660DNABurkholderia pseudomallei 626cacgggcgcg gcgcagatgg acggcgcgat cctggtgtgc tcggccgctg acggcccgat 6062760DNAStenotrophomonas maltophilia 627caccggtgcc gcccagatgg acggcgcgat cctggtgtgc tcggccgctg acggcccgat 6062860DNAPseudomonas aeruginosa 628caccggtgct gcccagatgg acggcgcgat cctggtttgc tcggctgccg acggccccat 6062960DNAKlebsiella pneumoniae 629caccggtgct gcgcagatgg acggcgcgat cctggttgtt gctgcgactg acggcccgat 6063060DNAMycobacterium avium 630caccggcgcc gcccagatgg acggcgcgat cctggtggtc gccgccaccg acggcccgat 6063160DNAMycobacterium avium 631caccggcgcc gcccagatgg acggcgcgat cctggtggtc gccgccaccg acggcccgat 6063260DNAMycobacterium intracellulare 632caccggtgcg gcccagatgg acggcgcgat cctggtggtt gccgccaccg acggcccgat 6063360DNAMycobacterium kansasii 633caccggcgcc gcccagatgg acggcgcgat cctggtggtc gccgccacgg acggcccgat 6063460DNAMycobacterium tuberculosis 634caccggcgcc gcgcagatgg acggtgcgat cctggtggtc gccgccaccg acggcccgat 6063560DNAMycobacterium tuberculosis 635caccggcgcc gcgcagatgg acggtgcgat cctggtggtc gccgccaccg acggcccgat 6063660DNAMycobacterium avium 636caccggtgcc gcccagatgg acggcgcgat cctggtggtc gccgcgaccg acggcccgat 6063760DNACorynebacterium diphtheriae 637caccggtgct gctcagatgg acggcgcaat cctcgttgtt gctgccaccg acggcccaat 6063860DNANeisseria meningitidis 638taccggcgcc gcacaaatgg acggtgcaat cctggtatgt tccgcagccg acggccctat 6063960DNANeisseria meningitidis 639taccggcgca gcacaaatgg acggtgcaat cctggtatgt tccgcagccg acggccctat 6064060DNANeisseria meningitidis 640taccggtgcc gcacaaatgg acggtgcaat cctggtatgt tccgcagccg acggccctat 6064160DNAMycoplasma pneumoniae 641gccacaaaca agagaacaca tcttattagc tagacaagtt ggtgttccta aaatggtagt 6064260DNAMycoplasma pneumoniae 642gccccaaacc cgtgaacaca ttttgttggc ccgccaagtg ggtgtgccac gcatggtagt 6064360DNALegionella pneumophila 643gccacaaacg agggaacaca ttctattgtc tcgccaggta ggtgttccat atattgttgt 6064460DNALegionella pneumophila 644gccacaaacg agggaacaca ttctattgtc tcgccaggta ggtgttccat atattgttgt 6064560DNALegionella pneumophila 645gccacaaacg agggaacaca ttctattgtc tcgccaggta ggtgttccat atattgttgt 6064660DNALegionella pneumophila 646gccacaaacg agggaacaca ttctattgtc tcgccaggta ggtgttccat atattgttgt 6064760DNALegionella longbeachiae 647gcctcaaact agagaacata ttctattgtc acgacaagta ggggtgccct acatagtagt 6064860DNAFusobacterium nucleatum 648gcctcaaaca agagaacata tcttactttc tagacaagtt ggagtaccat atattattgt 6064960DNAChlamydophila pneumoniae 649gccacaaact aaagaacata tcttgctagc tcgccaggtt ggagttcctt atatcgttgt 6065060DNAEnterococcus faecalis 650gcctcaaaca cgtgaacata tcttattatc acgtaacgtt ggtgtaccat acatcgttgt 6065160DNAEnterococcus faecalis 651gcctcaaaca cgtgaacata tcttattatc acgtaacgtt ggtgtaccat acatcgttgt 6065260DNAStaphylococcus aureus 652gccacaaact cgtgaacaca ttcttttatc acgtaacgtt ggtgtaccag cattagtagt 6065360DNAStaphylococcus aureus 653gccacaaact cgtgaacaca ttcttttatc acgtaacgtt ggtgtaccag cattagtagt 6065460DNAStaphylococcus aureus 654gccacaaact cgtgaacaca ttcttttatc acgtaacgtt ggtgtaccag cattagtagt 6065560DNAStaphylococcus aureus 655gccacaaact cgtgaacaca ttcttttatc acgtaacgtt ggtgtaccag cattagtagt 6065660DNAStaphylococcus aureus 656gccacaaact cgtgaacaca ttcttttatc acgtaacgtt ggtgtaccag cattagtagt 6065760DNAStaphylococcus epidermidis 657gccacaaact cgtgaacaca tcttattatc acgtaacgtt ggtgtaccag cattagttgt 6065860DNAStaphylococcus epidermidis 658gccacaaact cgtgaacaca tcttattatc acgtaacgtt ggtgtaccag cattagttgt 6065960DNAStreptococcus mitis 659gccacaaact cgtgagcaca tccttctttc acgtcaggtt ggtgttaaac acttgatcgt 6066060DNAStreptococcus sanguis 660gccacaaact cgtgagcaca tcttgctttc acgtcaggtt ggtgttaaac acttgatcgt 6066160DNAStreptococcus mitis 661gccacaaact cgtgagcaca tccttctttc acgtcaggtt ggtgttaaac accttatcgt 6066260DNAStreptococcus pneumoniae 662gccacaaact cgtgagcaca tccttctttc acgtcaggtt ggtgttaaac accttatcgt 6066360DNAStreptococcus pyogenes 663gccacaaact cgtgagcaca tccttctttc acgtcaggtt ggtgttaaac accttatcgt 6066460DNAStreptococcus mutans 664gccacaaact cgtgaacaca ttcttctttc acgtcaagtt ggtgttaaat accttattgt 6066560DNAStreptococcus mutans 665gccacaaact cgtgaacaca ttcttctttc acgtcaagtt ggtgttaaat acctcattgt 6066660DNAHaemophilus influenzae 666gccacaaact cgtgaacaca tcttattagg tcgccaagta ggtgttccat acatcatcgt 6066760DNAMoraxella catarrhalis 667gccacaaact cgtgagcaca tcctactgtc tcgtcaggtt ggtgtaccat atatcatggt 6066860DNABordetella pertussis 668gccgcagacg cgcgagcaca ttttgctgtc gcgccaggtt ggcgtgccgt acatcatcgt 6066960DNABordetella parapertussis 669gccgcagacg cgcgagcaca ttttgctgtc gcgccaggtt ggcgtgccgt acatcatcgt 6067060DNABurkholderia cepacia 670gccgcaaacg cgtgagcaca tcctgctggc gcgtcaggtt ggcgttccgt acatcatcgt 6067160DNABurkholderia pseudomallei 671gccgcaaacg cgtgagcaca tcctgctggc gcgtcaggtc ggtgtgccgt acatcatcgt 6067260DNAStenotrophomonas maltophilia 672gccgcagacc cgtgagcaca tcctgctgtc gcgccaggtc ggcgtgccgt acatcgtcgt 6067360DNAPseudomonas aeruginosa 673gccgcagacc cgcgagcaca tcctgctgtc ccgccaggta ggcgttccct acatcgtcgt 6067460DNAKlebsiella pneumoniae 674gccgcagact cgtgagcaca tcctgctggg tcgtcaggta ggcgttccgt acatcatcgt 6067560DNAMycobacterium avium 675gccgcagacc cgcgagcacg tgctgctggc ccgtcaggtc ggtgtgccct acatcctggt 6067660DNAMycobacterium avium 676gccgcagacc cgcgagcacg tgctgctggc ccgtcaggtc ggtgtgccct acatcctggt 6067760DNAMycobacterium intracellulare 677gccgcagacc cgtgagcacg tgctgctcgc gcgtcaggtc ggggtgccct acatcctggt 6067860DNAMycobacterium kansasii 678gccgcagacc cgtgagcacg tgctgctcgc acgtcaggtg ggtgtgccct acatcctggt 6067960DNAMycobacterium tuberculosis 679gccccagacc cgcgagcacg ttctgctggc gcgtcaagtg ggtgtgccct acatcctggt 6068060DNAMycobacterium tuberculosis 680gccccagacc cgcgagcacg ttctgctggc gcgtcaagtg ggtgtgccct acatcctggt 6068160DNAMycobacterium avium 681gccgcagacc cgcgagcacg tgctgctcgg ccgtcaggtg ggtgtgccct acatcctcgt 6068260DNACorynebacterium diphtheriae 682gcctcagacc cgtgagcacg ttctgctcgc tcgccaggtc ggcgttcctt acatcctcgt 6068360DNANeisseria meningitidis 683gccgcaaacc cgcgaacaca tcctgctggc ccgccaagta ggcgtacctt acatcatcgt 6068460DNANeisseria meningitidis 684gccgcaaacc cgcgaacaca tcctgctggc ccgtcaagta ggcgtacctt acatcatcgt 6068560DNANeisseria meningitidis 685gccgcaaacc cgcgaacaca tcctgctggc ccgtcaagta ggcgtacctt acatcatcgt 6068654DNAMycoplasma pneumoniae 686tttcttaaac aaatgtgata tggtatctga tgctgaaatg caagacctag taga 5468754DNAMycoplasma pneumoniae 687gttcctaaac aagtgtgaca ttgcaactga tgaagaagtg caagagttag tagc 5468854DNALegionella pneumophila 688gttcatgaac aaagcggata tggttgatga ccctgagtta ttagagttag tgga 5468954DNALegionella pneumophila 689gttcatgaac aaagcggata tggttgatga ccctgagtta ttagagttag tgga 5469054DNALegionella pneumophila 690gttcatgaac aaagcggata tggttgatga ccctgagtta ttagagttag tgga 5469154DNALegionella pneumophila 691gttcatgaac aaagcggata tggttgatga ccctgagtta ttagagttag tgga 5469254DNALegionella longbeachiae 692gtttatgaat aaagcggaca tggttgatga tccagagctc ttagagcttg taga 5469354DNAFusobacterium nucleatum 693ttatttaaat aaatcagata tggttgatga tgaagaatta ctagaattgg taga 5469460DNAChlamydophila pneumoniae 694tttcttgaat aaagtagata tgatctctca agaagatgct gaacttattg accttgttga 6069554DNAEnterococcus faecalis 695attcttaaac aaaatggata tggttgatga cgaagaatta ttagaattag taga 5469654DNAEnterococcus faecalis 696attcttaaac aaaatggata tggttgatga cgaagaatta ttagaattag taga 5469754DNAStaphylococcus aureus 697attcttaaac aaagttgaca tggttgacga tgaagaatta ttagaattag taga 5469854DNAStaphylococcus aureus 698attcttaaac aaagttgaca tggttgacga tgaagaatta ttagaattag taga 5469954DNAStaphylococcus aureus 699attcttaaac aaagttgaca tggttgacga tgaagaatta ttagaattag taga 5470054DNAStaphylococcus aureus 700attcttaaac aaagttgaca tggttgacga tgaagaatta ttagaattag taga 5470154DNAStaphylococcus aureus 701attcttaaac aaagttgaca tggttgacga tgaagaatta ttagaattag taga 5470254DNAStaphylococcus epidermidis 702attcttaaac aaagttgaca tggtagacga cgaagaatta ttagaattag ttga 5470354DNAStaphylococcus epidermidis 703attcttaaac aaagttgaca tggtagacga cgaagaatta ttagaattag ttga 5470454DNAStreptococcus mitis 704cttcatgaac aaagttgact tggttgacga tgaagaattg cttgaattgg ttga 5470554DNAStreptococcus sanguis 705cttcatgaac aaagttgact tggttgacga tgaagaattg cttgaattgg ttga 5470654DNAStreptococcus mitis 706cttcatgaac aaagttgact tggttgacga cgaagaattg cttgaattgg ttga 5470754DNAStreptococcus pneumoniae 707cttcatgaac aaagttgact tggttgacga cgaagaattg cttgaattgg ttga 5470854DNAStreptococcus pyogenes 708gttcatgaac aaagttgacc ttgttgatga cgaagagttg cttgaattag ttga 5470954DNAStreptococcus mutans 709cttcatgaat aaggttgatt tggttgatga tgaagaactg cttgaattgg ttga 5471054DNAStreptococcus mutans 710cttcatgaat aaagttgatt tggttgacga tgaagaattg cttgaattgg ttga 5471154DNAHaemophilus influenzae 711attcttaaac aaatgcgaca tggtagatga cgaagagtta ttagaattag tcga 5471254DNAMoraxella catarrhalis 712attcatgaac aagtgcgaca tggtagatga tgaagagcta ctagaattgg ttga 5471354DNABordetella pertussis 713gttcctgaac aaggcggaca tggttgatga cgcggagctg ctcgagctgg tgga 5471454DNABordetella parapertussis 714gttcctgaac aaggcggaca tggttgatga cgcggagctg ctcgagctgg tgga 5471554DNABurkholderia cepacia 715gttcctgaac aagtgcgaca tggtggacga cgctgaactg ctcgagctgg tcga 5471654DNABurkholderia pseudomallei 716gttcctgaac aagtgcgata tggtggacga cgcggagctg ctcgagctgg tcga 5471754DNAStenotrophomonas maltophilia 717gttcctgaac aaggccgaca tggtcgacga cgccgagctg ctcgagctgg

tcga 5471854DNAPseudomonas aeruginosa 718gttcctgaac aaggccgaca tggtcgacga cgccgagctg ctggaactgg tcga 5471954DNAKlebsiella pneumoniae 719gttcctgaac aaatgcgaca tggttgatga cgaagagctg ctggaactgg ttga 5472054DNAMycobacterium avium 720cgcgctgaac aaggccgaca tggtcgacga cgaggagctg ctcgagctcg tcga 5472154DNAMycobacterium avium 721cgcgctgaac aaggccgaca tggtcgacga cgaggagctg ctcgagctcg tcga 5472254DNAMycobacterium intracellulare 722cgccctcaac aaggccgaca tggtcgacga cgaggagctc ctcgagctcg tcga 5472354DNAMycobacterium kansasii 723cgcgctgaac aaggccgacg ccgtcgacga cgaggagttg ctcgaactcg tcga 5472454DNAMycobacterium tuberculosis 724agcgctgaac aaggccgacg cagtggacga cgaggagctg ctcgaactcg tcga 5472554DNAMycobacterium tuberculosis 725agcgctgaac aaggccgacg cagtggacga cgaggagctg ctcgaactcg tcga 5472654DNAMycobacterium avium 726ggcgctgaac aagtcggaca tggtcgacga cgaggagctc ctcgagctcg tcga 5472754DNACorynebacterium diphtheriae 727tgctctgaac aagtgcgaca tggttgatga tgaggaaatc atcgagctcg tcga 5472854DNANeisseria meningitidis 728gttcatgaac aaatgcgaca tggtcgacga tgccgagctg ttggaactgg ttga 5472954DNANeisseria meningitidis 729gttcatgaac aaatgcgaca tggtcgacga tgccgagctg ttggaactgg ttga 5473054DNANeisseria meningitidis 730gttcatgaac aaatgcgaca tggtcgacga tgccgagctg ttggaactgg ttga 5473160DNAMycoplasma pneumoniae 731aatggaagtt agagaattac tttcttctta tggttttgat ggagataaca ctccagttat 6073260DNAMycoplasma pneumoniae 732agaagaggta cgtgacttat taacttctta cggctttgat ggcaagaaca cccctattat 6073360DNALegionella pneumophila 733aatggaagtg cgagatttat taagcagtta cgatttccca ggggatgaca tacctattgt 6073460DNALegionella pneumophila 734aatggaagtg cgagatttat taagcagtta cgatttccca ggggatgaca tacccattgt 6073560DNALegionella pneumophila 735aatggaagtg cgagatttat taagcagtta cgatttccca ggggatgaca tacctattgt 6073660DNALegionella pneumophila 736aatggaagtg cgagatttat taagcagtta cgatttccca ggggatgata tacctattat 6073760DNALegionella longbeachiae 737aatggaagtc cgtgatttgt tgagcagtta tgattttcct ggtgatgata ttccaattgt 6073860DNAFusobacterium nucleatum 738aatggaagtt agagaattat taactgaata tggattccca ggagatgaca tccctgtaat 6073954DNAChlamydophila pneumoniae 739gatggaactt agtgagcttc ttgaagaaaa aggctacaaa ggatgcccta ttat 5474060DNAEnterococcus faecalis 740aatggaagtt cgtgacttat tatcagaata cgatttccca ggcgatgatg ttccagttat 6074160DNAEnterococcus faecalis 741aatggaagtt cgtgacttat tatcagaata cgatttccca ggcgatgatg ttccagttat 6074260DNAStaphylococcus aureus 742aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074360DNAStaphylococcus aureus 743aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074460DNAStaphylococcus aureus 744aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074560DNAStaphylococcus aureus 745aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074660DNAStaphylococcus aureus 746aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074760DNAStaphylococcus epidermidis 747aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074860DNAStaphylococcus epidermidis 748aatggaagtt cgtgacttat taagcgaata tgacttccca ggtgacgatg tacctgtaat 6074960DNAStreptococcus mitis 749aatggaaatc cgtgaccttc tttcagaata cgatttccca ggtgatgacc ttccagttat 6075060DNAStreptococcus sanguis 750aatggaaatc cgtgacctct tgtcagaata cgacttccca ggtgacgatc ttccagttat 6075160DNAStreptococcus mitis 751aatggaaatc cgtgacctat tgtcagaata cgacttccca ggtgacgatc ttccagttat 6075260DNAStreptococcus pneumoniae 752aatggaaatc cgtgacctat tgtcagaata cgacttccca ggtgacgatc ttccagttat 6075360DNAStreptococcus pyogenes 753gatggaaatt cgtgaccttc tttcagaata cgatttccca ggtgatgacc ttccagttat 6075460DNAStreptococcus mutans 754aatggaaatc cgtgatcttc tttcagaata tgatttccca ggtgatgata ttccagttat 6075560DNAStreptococcus mutans 755aatggaaatc cgtgatcttc tttcagaata tgatttccca ggtgatgata ttccagttat 6075660DNAHaemophilus influenzae 756aatggaagtt cgtgaacttc tatctcaata tgacttccca ggtgacgata caccaatcgt 6075760DNAMoraxella catarrhalis 757aatggaagtt cgtgaacttc tatctgacta tgacttccca ggtgatgaca ccccaatcat 6075860DNABordetella pertussis 758gatggaagtc cgcgaactgc tgagcaagta cgatttcccg ggcgatgaca cgccgatcgt 6075960DNABordetella parapertussis 759gatggaagtc cgcgaactgc tgagcaagta cgatttcccg ggcgatgaca cgccgatcgt 6076060DNABurkholderia cepacia 760gatggaagtt cgcgaactgc tgtcgaagta cgacttcccg ggcgacgaca cgccgatcat 6076160DNABurkholderia pseudomallei 761aatggaagtg cgcgaactgc tgtcgaagta cgacttcccg ggcgacgaca cgccgatcat 6076260DNAStenotrophomonas maltophilia 762gatggaagtg cgcgaactgc tgagcaagta cgagttcccg ggcgacgaca ccccgatcat 6076360DNAPseudomonas aeruginosa 763gatggaagtt cgcgatctgc tgaacaccta cgacttcccg ggcgacgaca ctccgatcat 6076460DNAKlebsiella pneumoniae 764gatggaagtt cgtgaactgc tgtctcagta cgatttcccg ggcgacgaca ccccgatcgt 6076557DNAMycobacterium avium 765gatggaggtc cgcgagctgc tggccgccca ggagttcgac gaggacgccc cggtggt 5776657DNAMycobacterium avium 766gatggaggtc cgcgagctgc tggccgccca ggagttcgac gaggacgccc cggtggt 5776757DNAMycobacterium intracellulare 767gatggaggtc cgcgaactgc tggccgccca ggagttcgac gaggacgccc cggtggt 5776857DNAMycobacterium kansasii 768gatggaggtc cgcgagctgc tggccgccca ggagttcgac gaggacgccc cggtggt 5776957DNAMycobacterium tuberculosis 769gatggaggtc cgcgagctgc tggctgccca ggaattcgac gaggacgccc cggttgt 5777057DNAMycobacterium tuberculosis 770gatggaggtc cgcgagctgc tggctgccca ggaattcgac gaggacgccc cggttgt 5777157DNAMycobacterium avium 771gatggaggtc cgcgaactgc tggccgccca ggagttcgac gaggacgccc cggtcat 5777257DNACorynebacterium diphtheriae 772gatggagatc cgtgagctgc tcgctgagca ggattacgac gaagaggctc caatcat 5777360DNANeisseria meningitidis 773aatggaaatc cgcgacctgc tgtccagcta cgacttcccc ggcgatgact gcccgattgt 6077460DNANeisseria meningitidis 774aatggaaatc cgcgacctgc tgtccagcta cgacttcccc ggcgacgact gcccgatcgt 6077560DNANeisseria meningitidis 775aatggaaatc cgcgacctgc tgtccagcta cgacttcccc ggcgacgact gcccgattgt 6077652DNAMycoplasma pneumoniae 776tagaggttca gctttaaaag cattagaagg tgatgctact tgagaagcta aa 5277752DNAMycoplasma pneumoniae 777ttatggttct gcacttaaag cgcttgaagg tgatcctaag tgggaagcta ag 5277857DNALegionella pneumophila 778tgttggttca gctttgaaag cattggaagg tgaagacagt gatataggcg ttaaggc 5777957DNALegionella pneumophila 779tgttggttca gctttgaaag cattggaagg tgaagacagt gatataggcg ttaaggc 5778057DNALegionella pneumophila 780tgttggttca gctttgaaag cattggaagg tgaagacagt gatataggcg ttaaggc 5778157DNALegionella pneumophila 781tgttggttca gctttgaaag cattggaagg tgaagacagt gatataggtg ttaaggc 5778257DNALegionella longbeachiae 782tgttggatct gcattgaaag cattagaagg tgataccagt gatattgggg tgccagc 5778352DNAFusobacterium nucleatum 783tagaggttca tcattaggag ctttaaatgg tgaagaaaaa tggatagaaa ag 5278453DNAChlamydophila pneumoniae 784ccgtggttct gctttgaaag ctcttgaagg tgatgcaaat tatatcgaaa aag 5378552DNAEnterococcus faecalis 785cgcaggttct gctttgaaag ctttagaagg cgacgagtct tatgaagaaa aa 5278652DNAEnterococcus faecalis 786cgcaggttct gctttgaaag ctttagaagg cgacgagtct tatgaagaaa aa 5278752DNAStaphylococcus aureus 787cgctggttca gcattaaaag ctttagaagg cgatgctcaa tacgaagaaa aa 5278852DNAStaphylococcus aureus 788cgctggttca gcattaaaag ctttagaagg cgatgctcaa tacgaagaaa aa 5278952DNAStaphylococcus aureus 789cgctggttca gcattaaaag ctttagaagg cgatgctcaa tacgaagaaa aa 5279052DNAStaphylococcus aureus 790cgctggttca gcattaaaag ctttagaagg cgatgctcaa tacgaagaaa aa 5279152DNAStaphylococcus aureus 791cgctggttca gcattaaaag ctttagaagg cgatgctcaa tacgaagaaa aa 5279252DNAStaphylococcus epidermidis 792cgctggttct gcattaaaag cattagaagg cgatgctgaa tacgaacaaa aa 5279352DNAStaphylococcus epidermidis 793cgctggttct gcattaaaag cattagaagg cgatgctgaa tacgaacaaa aa 5279452DNAStreptococcus mitis 794ccaaggttca gctcttaaag ctcttgaagg tgatgctaaa tacgaagaca tc 5279552DNAStreptococcus sanguis 795ccaaggttca gctcttaaag ctcttgaagg tgactctaaa tatgaagaca tc 5279652DNAStreptococcus mitis 796ccaaggttca gctcttaaag cccttgaagg tgacactaaa tacgaagaca tc 5279752DNAStreptococcus pneumoniae 797ccaaggttca gcacttaaag ctcttgaagg tgactctaaa tacgaagaca tc 5279852DNAStreptococcus pyogenes 798ccaaggttca gctcttaaag ctcttgaagg cgacactaaa tttgaagaca tc 5279952DNAStreptococcus mutans 799tcaaggttca gctcttaaag ctcttgaagg tgatactgct caagaagata tc 5280052DNAStreptococcus mutans 800tcaaggttca gctcttaaag ctcttgaagg cgatactgct caagaagata tc 5280152DNAHaemophilus influenzae 801acgtggttca gcattacaag cgttaaacgg cgtagcagaa tgggaagaaa aa 5280257DNAMoraxella catarrhalis 802caaaggttca gcactagaag cattgaatgg ttctgacggt aaatatggtg agcctgc 5780357DNABordetella pertussis 803gaagggttcg gccaagctgg cgctggaagg cgacaagggc gaactgggcg agcaggc 5780457DNABordetella parapertussis 804gaagggttcg gccaagctgg cgctggaagg cgacaagggc gaactgggcg agcaggc 5780557DNABurkholderia cepacia 805caagggttcg gcaaagctgg cgctggaagg cgacaagggc gagctgggcg aaacggc 5780657DNABurkholderia pseudomallei 806caagggttcg gcgaagctgg cgctggaagg cgacaagggc gagctgggcg aagtggc 5780757DNAStenotrophomonas maltophilia 807cgccggttcg gcccgcctgg cgctggaagg cgaccagagc gacatcggcg tgccggc 5780860DNAPseudomonas aeruginosa 808catcggttcc gcgctgatgg cgctggaagg caaggatgac aacggcatcg gcgtaagcgc 6080951DNAKlebsiella pneumoniae 809tcgtggttct gctctgaaag cgctggaagg cgacgcagag tgggaagcga a 5181051DNAMycobacterium avium 810gcgggtgtcg gcgctcaagg cgctcgaggg cgacgccaag tgggtggagt c 5181151DNAMycobacterium avium 811gcgggtgtcg gcgctcaagg cgctcgaggg cgacgccaag tgggtggagt c 5181251DNAMycobacterium intracellulare 812gcgcgtctcg gcgctgaagg cgctcgaggg cgacgccaag tgggtggagt c 5181351DNAMycobacterium kansasii 813gcgggtctcg gcactgaagg ccctcgaggg cgaccccaag tgggtggagt c 5181451DNAMycobacterium tuberculosis 814gcgggtctcg gcgctcaagg cgctcgaggg tgacgcgaag tgggttgcct c 5181551DNAMycobacterium tuberculosis 815gcgggtctcg gcgctcaagg cgctcgaggg tgacgcgaag tgggttgcct c 5181651DNAMycobacterium avium 816ccgcgtctcc gcgctgaagg cgctggaggg tgacccgaag tgggtcaagt c 5181751DNACorynebacterium diphtheriae 817ccacatctcc gcactgaagg ctcttgaggg cgacgagaag tggacccagt c 5181851DNANeisseria meningitidis 818acaaggttcc gcactgaaag ccttggaagg cgatgccgct tacgaagaaa a 5181951DNANeisseria meningitidis 819acaaggttcc gcactgaaag ccttggaagg cgatgccgct tacgaagaaa a 5182051DNANeisseria meningitidis 820acaaggttct gcactgaaag ccttggaagg cgatgccgct tatgaagaga a 5182159DNAMycoplasma pneumoniae 821attgatgaat taatggcttc agtagatagc tacatcccaa ctccaacaag agatacaga 5982259DNAMycoplasma pneumoniae 822atccatgatt taatgaatgc agttgatgaa tggattccaa ctcctgaacg tgaagtgga 5982360DNALegionella pneumophila 823tatagagaaa ttggttgaaa caatggattc atacattcct gagccagtta gaaacataga 6082460DNALegionella pneumophila 824tattgagaaa ttggttgaaa caatggattc atacattcct gagccagtta gaaatataga 6082560DNALegionella pneumophila 825tattgagaaa ttggttgaaa caatggattc atacattcct gagccagtta gaaacataga 6082660DNALegionella pneumophila 826tattgagaaa ttagttgaaa caatggattc atacattcct gagccagtta gaaacataga 6082760DNALegionella longbeachiae 827aatagagaaa ttggtagaga ctatggattc ttatattcca gagcctgtaa gaaacattga 6082859DNAFusobacterium nucleatum 828ataatggaac ttatggatgc agtagatagc tatatcccta ctcctgaaag agcagtaga 5982958DNAChlamydophila pneumoniae 829ttcgagaact tatgcaagct gtggatgaca acatccctac accagaaaga gaaattga 5883059DNAEnterococcus faecalis 830atcttagaat taatggctgc agttgacgaa tatatcccaa ctccagaacg tgatactga 5983159DNAEnterococcus faecalis 831atcttagaat taatggctgc agttgacgaa tatatcccaa ctccagaacg tgatactga 5983259DNAStaphylococcus aureus 832atcttagaat taatggaagc tgtagatact tacattccaa ctccagaacg tgattctga 5983359DNAStaphylococcus aureus 833atcttagaat taatggaagc tgtagatact tacattccaa ctccagaacg tgattctga 5983459DNAStaphylococcus aureus 834atcttagaat taatggaagc tgtagatact tacattccaa ctccagaacg tgattctga 5983559DNAStaphylococcus aureus 835atcttagaat taatggaagc tgtagatact tacattccaa ctccagaacg tgattctga 5983659DNAStaphylococcus aureus 836atcttagaat taatggaagc tgtagatact tacattccaa ctccagaacg tgattctga 5983759DNAStaphylococcus epidermidis 837atcttagact taatgcaagc agttgatgat tacattccaa ctccagaacg tgattctga 5983859DNAStaphylococcus epidermidis 838atcttagact taatgcaagc agttgatgat tacattccaa ctccagaacg tgattctga 5983959DNAStreptococcus mitis 839atcatggact tgatgaacac tgttgatgag tacatcccag aaccagaacg cgatactga 5984059DNAStreptococcus sanguis 840atcatggaat tgatggacac tgttgatgag tacatcccag aaccagaacg cgatactga 5984159DNAStreptococcus mitis 841gttatggaat tgatgaacac agttgatgag tacatcccag aaccagaacg tgacactga 5984259DNAStreptococcus pneumoniae 842gttatggaat tgatgaacac agttgatgag tatatcccag aaccagaacg tgacactga 5984359DNAStreptococcus pyogenes 843atcatggaat tgatggatac tgttgattca tacattccag aaccagaacg cgacactga 5984459DNAStreptococcus mutans 844atcatggaat taatgcatac tgttgatgac tacattccag atccagaacg tgatactga 5984559DNAStreptococcus mutans 845atcatggaat taatgcatac tgttgatgac tacattccag atccagaacg tgatactga 5984659DNAHaemophilus influenzae 846atccttgagt tagcaaacca cttagatact tacatcccag aaccagaacg tgcgattga 5984760DNAMoraxella catarrhalis 847tgttctagaa ctactagaca cgctagattc atacatccca gagcctgagc gtgacatcga 6084860DNABordetella pertussis 848gattctgtcg ctggcgcaag cgctggacac gtacattccg acgccggagc gcgcggtcga 6084960DNABordetella parapertussis 849gattctgtcg ctggcgcaag cgctggacac gtacattccg acgccggagc gcgcggtcga 6085060DNABurkholderia cepacia 850gatcatgaac ctggccgacg cgctggacac gtacatcccg acgccggagc gcgcggtgga 6085160DNABurkholderia pseudomallei 851gatcatgaac ctggccgacg cgctggacac gtacatcccg acgccggagc gtgcggtcga 6085260DNAStenotrophomonas maltophilia 852catcctgaag ctggtcgacg cgctggacag ctggattccg gagccggagc gtgcgatcga 6085360DNAPseudomonas aeruginosa 853cgtgcagaag ctggtagaga ccctggactc ctacattccg gagccggttc gtgccatcga 6085460DNAKlebsiella pneumoniae 854aatcatcgaa ctggctggcc acctggatac ctatatcccg gaaccagagc gtgcgattga 6085560DNAMycobacterium avium 855cgtcgagcag ctgatggagg ccgtcgacga gtcgatcccg gacccggtcc gcgagacgga 6085660DNAMycobacterium avium 856cgtcgagcag ctgatggagg ccgtcgacga gtcgatcccg gacccggtcc gcgagacgga 6085760DNAMycobacterium intracellulare 857ggtcgagcag ctgatggagg ccgtcgacga gtcgatcccg gaccccgtcc gtgagaccga 6085860DNAMycobacterium kansasii 858ggtggagcag ctgatggatg cggtcgacga gtcgatcccc gacccggtcc gtgagaccga 6085960DNAMycobacterium tuberculosis 859tgtcgaggaa ctgatgaacg cggtcgacga gtcgattccg gacccggtcc gcgagaccga 6086060DNAMycobacterium tuberculosis 860tgtcgaggaa ctgatgaacg cggtcgacga gtcgattccg gacccggtcc gcgagaccga 6086160DNAMycobacterium avium 861ggttgaggac ctcatggagg ccgtcgacga gtcgatcccg gatccggttc gcgagaccga 6086260DNACorynebacterium diphtheriae 862catcatcgac ctcatgcagg cttgcgatga ttccatccca gacccagagc gtgagaccga 6086360DNANeisseria meningitidis 863aatcttcgaa ctggctgccg cattggacag ctacatcccg actcccgagc gagccgtgga 6086460DNANeisseria meningitidis 864aatcttcgaa ttggctgctg cattggacag ctacatcccg actcccgagc gtgccgtgga 6086560DNANeisseria meningitidis 865aatcttcgaa ctggctgccg cattggacag ctacatcccg actcccgagc gtgccgtgga 6086660DNAMycoplasma pneumoniae 866caaacctttc ttattagcgg tagaagacgt tatgactatt actggtagag gtactgtagt 6086760DNAMycoplasma pneumoniae 867caaacccttc ttgttggcaa tcgaagacac catgacgatt actggccgtg gtaccgtggt 6086860DNALegionella pneumophila 868caagccattt ttgttaccga ttgaagacgt attttcaatt tctggacgcg gaacagtggt 6086960DNALegionella pneumophila 869caagccattt ttgttaccga ttgaagacgt attttcaatt tctggacgcg gaacagtggt 6087060DNALegionella pneumophila 870caagccattt ttgttgccga ttgaagacgt attttcaatt tctggacgcg gaacagtggt 6087160DNALegionella pneumophila 871caagccattc ttgttgccga ttgaagacgt gttttcaatt tctggacgcg gaacagtggt 6087260DNALegionella longbeachiae 872caaatcgttc ttattaccga ttgaagatgt attttcaata tctggccgag gaacagtagt 6087360DNAFusobacterium nucleatum 873tcaaccattc ttgatgccaa tagaagacgt tttcactatc acaggaagag gaacagttgt 6087460DNAChlamydophila pneumoniae 874taagcctttc ttaatgccta tcgaagacgt attctcaatc tctggtcgtg gtactgtggt 6087560DNAEnterococcus faecalis 875caaaccattc atgatgccag tcgaagacgt attctcaatc actggacgtg gtactgttgc 6087660DNAEnterococcus faecalis 876caaaccattc atgatgccag tcgaagacgt attctcaatc actggacgtg gtactgttgc 6087760DNAStaphylococcus aureus 877caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6087860DNAStaphylococcus aureus 878caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6087960DNAStaphylococcus aureus 879caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6088060DNAStaphylococcus aureus 880caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6088160DNAStaphylococcus aureus 881caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6088260DNAStaphylococcus epidermidis 882caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc 6088360DNAStaphylococcus epidermidis 883caaaccattc atgatgccag ttgaggacgt attctcaatc actggtcgtg gtactgttgc

6088460DNAStreptococcus mitis 884caaaccattg cttcttccag tcgaagacgt attctcaatc actggacgtg gtactgtagc 6088560DNAStreptococcus sanguis 885caagccattg cttcttccag tcgaagacgt attctcaatc actggtcgtg gtacagttgc 6088660DNAStreptococcus mitis 886caaaccattg cttcttccag tcgaagacgt attctcaatc actggtcgtg gtacagttgc 6088760DNAStreptococcus pneumoniae 887caaaccattg cttcttccag tcgaggacgt attctcaatc actggacgtg gtacagttgc 6088860DNAStreptococcus pyogenes 888caaaccattg cttcttccag tcgaagacgt attctcaatt acaggtcgtg gtacagttgc 6088960DNAStreptococcus mutans 889taagccactc cttcttccag tcgaagatgt tttctcaatc actggtcgtg gtactgttgc 6089060DNAStreptococcus mutans 890caagccgctc cttcttccag tcgaagatgt tttctcaatc actggtcgtg gtactgttgc 6089160DNAHaemophilus influenzae 891ccaaccgttc cttcttccaa tcgaagatgt gttctcaatc tcaggtcgtg gtactgtagt 6089260DNAMoraxella catarrhalis 892taagtcattc ctaatgccaa tcgaagatgt cttctcaatc tcaggtcgtg gtactgttgt 6089360DNABordetella pertussis 893cggtgcgttc ctgatgccgg tggaagacgt gttctcgatc tcgggccgtg gcacggtggt 6089460DNABordetella parapertussis 894cggtgcgttc ctgatgccgg tggaagacgt gttctcgatc tcgggccgtg gcacggtggt 6089560DNABurkholderia cepacia 895cggtacgttc ctgatgccgg tggaagacgt gttctcgatc tcgggccgcg gtacggtggt 6089660DNABurkholderia pseudomallei 896cggcgcgttc ctgatgccgg tggaagacgt gttctcgatc tcgggccgtg gtacggtggt 6089760DNAStenotrophomonas maltophilia 897caagccgttc ctgatgccgg tggaagacgt gttctcgatc tcgggccgcg gcaccgtggt 6089860DNAPseudomonas aeruginosa 898ccagccgttc ctgatgccga tcgaagacgt gttctcgatc tccggccgcg gtaccgtggt 6089960DNAKlebsiella pneumoniae 899caagccgttc ctgctgccga tcgaagacgt attctccatc tccggtcgtg gtaccgttgt 6090060DNAMycobacterium avium 900caagccgttc ctgatgccgg tggaggacgt cttcaccatc accggtcgtg gcacggtggt 6090160DNAMycobacterium avium 901caagccgttc ctgatgccgg tggaggacgt cttcaccatc accggtcgtg gcacggtggt 6090260DNAMycobacterium intracellulare 902gaagccgttc ctgatgccgg tggaggacgt cttcacgatc accggtcgtg gcaccgtggt 6090360DNAMycobacterium kansasii 903caagccgttc ctgatgcccg tcgaggacgt cttcacgatc accggccgcg gcaccgtggt 6090460DNAMycobacterium tuberculosis 904caagccgttc ctgatgccgg tcgaggacgt cttcaccatt accggccgcg gaaccgtggt 6090560DNAMycobacterium tuberculosis 905caagccgttc ctgatgccgg tcgaggacgt cttcaccatt accggccgcg gaaccgtggt 6090660DNAMycobacterium avium 906caagccgttc ctgatgcccg tcgaggacgt cttcaccatc accggtcgtg gcaccgtggt 6090760DNACorynebacterium diphtheriae 907caagccattc ctcatgccta tcgaggacat cttcaccatc accggccgcg gtaccgttgt 6090860DNANeisseria meningitidis 908caaaccgttc ctgctgccta tcgaagacgt gttctccatt tccggccgcg gtacagtagt 6090960DNANeisseria meningitidis 909caaacctttc ttgttgccta tcgaagacgt attctctatt tccggtcgtg gtacagtagt 6091060DNANeisseria meningitidis 910caaacctttc ctgctgccta tcgaagacgt gttctccatt tccggccgag gtacagtagt 6091160DNAMycoplasma pneumoniae 911aactggtaga gttgaaagag gtactttaaa attaaacgat gaagttgaaa tcgttggtat 6091260DNAMycoplasma pneumoniae 912taccggtcgg gttgaacgtg gtgaattgaa agtaggtcaa gaaattgaaa tcgttggttt 6091360DNALegionella pneumophila 913aactggtcgt gttgagagtg gaattgttaa agttggtgag gaagttgaaa ttgttggaat 6091460DNALegionella pneumophila 914aactggtcgt gttgagagtg gaattgttaa agttggtgag gaagttgaaa ttgttggaat 6091560DNALegionella pneumophila 915aactggtcgt gtagagagtg gaattgttaa agttggtgag gaagttgaaa ttgttggaat 6091660DNALegionella pneumophila 916aactggtcgt gttgagagtg gaattgttaa agttggtgag gaagttgaaa ttgttggaat 6091760DNALegionella longbeachiae 917aacaggacgt atcgaaagcg gaattatcaa agttggcgaa gagatcgaaa ttgtaggaat 6091860DNAFusobacterium nucleatum 918tacaggaaga gttgaaagag gaatcatcaa agttggagaa gaaattgaaa tagttggaat 6091960DNAChlamydophila pneumoniae 919tacaggaaga atcgagcgtg gaatcgttaa agtttctgat aaagttcagc tcgtgggatt 6092060DNAEnterococcus faecalis 920tacaggacgt gttgaacgtg gtgaagttcg cgttggtgac gaagttgaaa tcgttggtat 6092160DNAEnterococcus faecalis 921tacaggccgt gttgaacgtg gtgaagttcg cgttggtgac gaagttgaaa tcgttggtat 6092260DNAStaphylococcus aureus 922tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggttt 6092360DNAStaphylococcus aureus 923tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggttt 6092460DNAStaphylococcus aureus 924tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggttt 6092560DNAStaphylococcus aureus 925tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggttt 6092660DNAStaphylococcus aureus 926tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggttt 6092760DNAStaphylococcus epidermidis 927tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggtat 6092860DNAStaphylococcus epidermidis 928tacaggccgt gttgaacgtg gtcaaatcaa agttggtgaa gaagttgaaa tcatcggtat 6092960DNAStreptococcus mitis 929atcaggacgt atcgaccgtg gtatcgttaa agtcaacgac gaaatcgaaa tcgttggtat 6093060DNAStreptococcus sanguis 930ttcaggacgt atcgaccgtg gtatcgttaa agtcaacgac gaaatcgaaa tcgttggtat 6093160DNAStreptococcus mitis 931ttcaggacgt atcgaccgtg gtatcgttaa agtcaacgac gaaatcgaaa tcgttggtat 6093260DNAStreptococcus pneumoniae 932ttcaggacgt atcgaccgtg gtatcgttaa agtcaacgac gaaatcgaaa tcgttggtat 6093360DNAStreptococcus pyogenes 933ttcaggacgt atcgaccgtg gtactgttcg tgtcaacgac gaaatcgaaa tcgttggtat 6093460DNAStreptococcus mutans 934ttcaggacgt attgatcgtg gtactgttaa agttaacgat gaagttgaaa tcgttggtat 6093560DNAStreptococcus mutans 935ttcaggacgt attgatcgtg gtactgttaa agttaacgat gaagttgaaa tcgttggtat 6093660DNAHaemophilus influenzae 936aacaggtcgt gtagaacgag gtattatccg tacaggtgat gaagtagaaa tcgtcggtat 6093760DNAMoraxella catarrhalis 937aactggccgt gttgaatcag gcattattaa agttggtgat gaaattgaaa tcatcggtat 6093860DNABordetella pertussis 938gactggccgt atcgagcgcg gcgtggtgaa ggttggcgag gaaatcgaaa tcgtgggcat 6093960DNABordetella parapertussis 939gactggccgt atcgagcgcg gcgtggtgaa ggttggcgag gaaatcgaaa tcgtgggtat 6094060DNABurkholderia cepacia 940gacgggtcgt gtggagcgcg gcgtggtgaa ggtcggtgag gaaatcgaaa tcgtcggtat 6094160DNABurkholderia pseudomallei 941gacgggtcgt gtcgagcgcg gcgtgatcaa ggttggcgag gaaatcgaaa tcgtcggtat 6094260DNAStenotrophomonas maltophilia 942gaccggtcgt atcgagcgcg gcgtgatcaa ggttggcgac gaaatcgaaa tcgtcggcat 6094360DNAPseudomonas aeruginosa 943aaccggtcgt gtagagcgcg gcatcatcaa ggtccaggaa gaagtggaaa tcgtcggcat 6094460DNAKlebsiella pneumoniae 944taccggtcgt gtagagcgcg gtatcatcaa agtaggtgaa gaagttgaaa tcgttggtat 6094560DNAMycobacterium avium 945caccggccgt gtcgagcgcg gcgtgatcaa cgtgaacgag gaagtcgaga tcgtcggcat 6094660DNAMycobacterium avium 946caccggccgt gtcgagcgcg gcgtgatcaa cgtgaacgag gaagtcgaga tcgtcggcat 6094760DNAMycobacterium intracellulare 947caccggtcgt gtcgagcgcg gtgtgatcaa cgtgaacgag gaagtcgaga tcgtcggtat 6094860DNAMycobacterium kansasii 948caccggtcgt gtggagcgcg gcgtggtcaa cgtcaacgag gaagtcgaga tcgtcggcat 6094960DNAMycobacterium tuberculosis 949caccggacgt gtggagcgcg gcgtgatcaa cgtgaacgag gaagttgaga tcgtcggcat 6095060DNAMycobacterium tuberculosis 950caccggacgt gtggagcgcg gcgtgatcaa cgtgaacgag gaagttgaga tcgtcggcat 6095160DNAMycobacterium avium 951gaccggtcgc gtcgagcgtg gcgtgatcaa cgtcaacgaa gaggtcgaga tcgtcggcat 6095260DNACorynebacterium diphtheriae 952taccggccgt gttgagcgtg gctccctgaa ggtcaacgag gacgtcgaga tcatcggtat 6095360DNANeisseria meningitidis 953aaccggccgt gtagagcgcg gtatcatcca cgttggtgac gagattgaaa tcgtcggtct 6095460DNANeisseria meningitidis 954aaccggtcgt gtagagcgcg gtatcatcca cgtcggtgac gagatcgaaa tcgtcggtct 6095560DNANeisseria meningitidis 955aaccggccgt gtagagcgcg gtatcatcca cgttggtgac gagattgaaa tcgtcggtct 6095657DNAMycoplasma pneumoniae 956ccatgatact agaaaagcag ttgttactgg tatggaaatg ttaagaaaaa cattaga 5795757DNAMycoplasma pneumoniae 957acgtccaatc cgtaaagcag ttgttaccgg aatcgaaatg ttcaaaaagg aacttga 5795857DNALegionella pneumophila 958aagagacact caaaagacga cttgtacggg tgttgagatg ttccgtaaat tacttga 5795957DNALegionella pneumophila 959aagagacacc caaaagacga cttgtacggg tgttgagatg ttccgtaaat tacttga 5796057DNALegionella pneumophila 960aagagacacc caaaagacga cttgtacggg tgttgagatg ttccgtaaat tacttga 5796157DNALegionella pneumophila 961aagagacacc caaaagacga cttgtactgg tgttgagatg ttccgtaaat tacttga 5796257DNALegionella longbeachiae 962tcgtgatact gcaaagacta cctgtactgg tgttgagatg ttccgtaagt tattaga 5796357DNAFusobacterium nucleatum 963taaacctaca actaaaacaa cttgtacagg ggttgaaatg tttagaaaac ttcttga 5796457DNAChlamydophila pneumoniae 964aggagagact aaagaaacaa tcgttactgg agtcgaaatg ttcaggaaag aacttcc 5796560DNAEnterococcus faecalis 965taaagacgaa acatctaaaa caactgttac aggtgttgaa atgttccgta aattattaga 6096660DNAEnterococcus faecalis 966taaagacgaa acatctaaaa caactgttac aggtgttgaa atgttccgta aattattaga 6096757DNAStaphylococcus aureus 967acatgacaca tctaaaacaa ctgttacagg tgttgaaatg ttccgtaaat tattaga 5796857DNAStaphylococcus aureus 968acatgacaca tctaaaacaa ctgttacagg tgttgaaatg ttccgtaaat tattaga 5796957DNAStaphylococcus aureus 969acatgacaca tctaaaacaa ctgttacagg tgttgaaatg ttccgtaaat tattaga 5797057DNAStaphylococcus aureus 970acatgacaca tctaaaacaa ctgttacagg tgttgaaatg ttccgtaaat tattaga 5797157DNAStaphylococcus aureus 971acatgacaca tctaaaacaa ctgttacagg tgttgaaatg ttccgtaaat tattaga 5797257DNAStaphylococcus epidermidis 972gcacgaaact tctaaaacaa ctgttactgg tgtagaaatg ttccgtaaat tattaga 5797357DNAStaphylococcus epidermidis 973gcacgaaact tctaaaacaa ctgttactgg tgtagaaatg ttccgtaaat tattaga 5797460DNAStreptococcus mitis 974taaagaagaa atccaaaaag cggttgttac tggtgttgaa atgttccgta aacaacttga 6097560DNAStreptococcus sanguis 975caaagaagaa atccaaaaag cagttgttac tggtgttgaa atgttccgta aacagcttga 6097660DNAStreptococcus mitis 976caaagaagaa actcaaaaag cagttgttac tggtgttgaa atgttccgta aacaacttga 6097760DNAStreptococcus pneumoniae 977caaagaagaa actcaaaaag cagttgttac tggtgttgaa atgttccgta aacaacttga 6097860DNAStreptococcus pyogenes 978caaagaagaa actaaaaaag ctgttgttac tggtgttgaa atgttccgta aacaacttga 6097960DNAStreptococcus mutans 979ccgtgatgac attcaaaaag ctgttgttac tggtgttgaa atgttccgta aacaattgga 6098060DNAStreptococcus mutans 980ccgtgatgac attcaaaaag ctgttgttac tggtgttgaa atgttccgta aacaattgga 6098157DNAHaemophilus influenzae 981caaagataca gcgaaaacta ctgtaacggg tgttgaaatg ttccgtaaat tacttga 5798257DNAMoraxella catarrhalis 982caaaccaact actaaaacca cttgtactgg tgttgaaatg ttccgtaagc tgctaga 5798357DNABordetella pertussis 983caagccgacg gtgaagacga cctgcacggg cgtggagatg ttccgcaagc tgctgga 5798457DNABordetella parapertussis 984caagccgacg gtgaagacga cctgcacggg cgtggagatg ttccgcaagc tgctgga 5798557DNABurkholderia cepacia 985caagccgacg gtgaagacga cctgcacggg cgttgaaatg ttccgcaagc tgctgga 5798657DNABurkholderia pseudomallei 986caaggcgacg gcgaagacga cctgcacggg cgtggaaatg ttccgcaagc tgctgga 5798757DNAStenotrophomonas maltophilia 987ccgtccggtg cagaagacca ccgtgaccgg cgttgaaatg ttccgcaagc tgctgga 5798857DNAPseudomonas aeruginosa 988caaggcgacc accaagacta cctgcaccgg cgttgaaatg ttccgcaagc tgctcga 5798957DNAKlebsiella pneumoniae 989caaagaaacc gcgaaaacca cctgtactgg cgttgaaatg ttccgcaaac tgctgga 5799060DNAMycobacterium avium 990ccgcccgtcc agcaccaaga ccacggtcac cggtgtggag atgttccgca agctgctcga 6099160DNAMycobacterium avium 991ccgcccgtcc agcaccaaga ccacggtcac cggtgtggag atgttccgca agctgctcga 6099260DNAMycobacterium intracellulare 992caagccgacc agcaccaaga ccaccgtcac cggtgtggag atgttccgca agctgctcga 6099360DNAMycobacterium kansasii 993ccgtccgacc accaccaaga ccacggtcac cggtgtggag atgttccgca agctgctcga 6099460DNAMycobacterium tuberculosis 994tcgcccatcg accaccaaga ccaccgtcac cggtgtggag atgttccgca agctgctcga 6099560DNAMycobacterium tuberculosis 995tcgcccatcg accaccaaga ccaccgtcac cggtgtggag atgttccgca agctgctcga 6099660DNAMycobacterium avium 996ccgcccgacc acgaccaaga ccaccgtcac cggtgtggaa atgttccgca agctgctcga 6099760DNACorynebacterium diphtheriae 997ccgcgagaag gctaccacca ccaccgttac cggtatcgag atgttccgta agcttctcga 6099857DNANeisseria meningitidis 998gaaagaaacc caaaaaacca cttgtaccgg tgttgaaatg ttccgcaaac tgctgga 5799957DNANeisseria meningitidis 999gaaagaaact caaaaaacca cttgtaccgg tgttgaaatg ttccgcaaac tgctgga 57100057DNANeisseria meningitidis 1000gaaagaaacc caaaaaacca cctgtaccgg tgttgaaatg ttccgcaaac tgctgga 57100160DNAMycoplasma pneumoniae 1001cgaagtaaaa gctggggata acgctggtat cttattaaga ggtattgata gaaaagatgt 60100260DNAMycoplasma pneumoniae 1002ttcagcaatg gctggggaca acgctggggt attactccgt ggtgtggacc gtaaagaagt 60100360DNALegionella pneumophila 1003tgaaggtcga gctggtgata acgttggagt gttattacga ggtacgaagc gagatgaagt 60100460DNALegionella pneumophila 1004tgaaggtcga gctggtgata acgttggtgt gttattacga ggtacgaagc gagatgaagt 60100560DNALegionella pneumophila 1005tgaaggtcga gctggtgata acgttggtgt gttattacga ggtacgaagc gagatgaagt 60100660DNALegionella pneumophila 1006tgaaggtcga gctggtgata acgttggtgt gttattacgc ggtacgaagc gagatgaagt 60100760DNALegionella longbeachiae 1007cgaaggacgt gcaggtgata acgttggtat attactccgt ggaacaaaac gagacgaagt 60100860DNAFusobacterium nucleatum 1008tcaaggtcaa gcaggagata atatcggagt attattaaga ggaactaaga aagaagaagt 60100960DNAChlamydophila pneumoniae 1009tgaaggtcgt gcaggagaaa acgttggttt actcctcaga ggtattggaa agaacgatgt 60101060DNAEnterococcus faecalis 1010ctacgctgaa gcaggcgaca acatcggtgc tttattacgt ggtgtagcac gtgaagatat 60101160DNAEnterococcus faecalis 1011ctacgctgaa gcaggcgaca acatcggtgc tttattacgt ggtgtagcac gtgaagatat 60101260DNAStaphylococcus aureus 1012ctacgctgaa gctggtgaca acattggtgc attattacgt ggtgttgctc gtgaagacgt 60101360DNAStaphylococcus aureus 1013ctacgctgaa gctggtgaca acattggtgc attattacgt ggtgttgctc gtgaagacgt 60101460DNAStaphylococcus aureus 1014ctacgctgaa gctggtgaca acattggtgc attattacgt ggtgttgctc gtgaagacgt 60101560DNAStaphylococcus aureus 1015ctacgctgaa gctggtgaca acattggtgc attattacgt ggtgttgctc gtgaagacgt 60101660DNAStaphylococcus aureus 1016ctacgctgaa gctggtgaca acattggtgc attattacgt ggtgttgctc gtgaagacgt 60101760DNAStaphylococcus epidermidis 1017ctacgctgaa gctggtgaca acatcggtgc tttattacgt ggtgttgcac gtgaagacgt 60101860DNAStaphylococcus epidermidis 1018ctacgctgaa gctggtgaca acatcggtgc tttattacgt ggtgttgcac gtgaagacgt 60101960DNAStreptococcus mitis 1019cgaatgtctt gcaggggaca acgttggtgt gcttcttcgt ggtatccaac gtgatgaaat 60102060DNAStreptococcus sanguis 1020cgaaggtctt gcaggggaca acgtaggtgt gcttctccgt ggtatccaac gtgatgaaat 60102160DNAStreptococcus mitis 1021cgaaggtctt gccggagata atgtaggtgt ccttcttcgt ggtgttcaac gtgatgaaat 60102260DNAStreptococcus pneumoniae 1022cgaaggtctt gctggagata acgtaggtgt ccttcttcgt ggtgttcaac gtgatgaaat 60102360DNAStreptococcus pyogenes 1023cgaaggtctt gcaggagaca acgtaggtat ccttcttcgt ggtgttcaac gtgacgaaat 60102460DNAStreptococcus mutans 1024tgaaggtatt gcaggggata atgttggtgt tctccttcgt ggtatccaac gtgatgaaat 60102560DNAStreptococcus mutans 1025tgaaggtatt gcaggggata atgttggtgt tctccttcgt ggtatccaac gtgatgaaat 60102660DNAHaemophilus influenzae 1026cgaaggtcgt gcaggtgaaa acatcggtgc attattacgt ggtaccaaac gtgaagaaat 60102760DNAMoraxella catarrhalis 1027cgaaggtcgt gcaggtgaga actgtggtat cctactacgt ggtactaagc gtgaagaagt 60102860DNABordetella pertussis 1028ccagggccag gcgggcgaca acgtgggtat cttgctgcgc ggcaccaagc gtgaagacgt 60102960DNABordetella parapertussis 1029ccagggccag gcgggcgaca acgtgggtat cttgctgcgc ggcaccaagc gtgaagacgt 60103060DNABurkholderia cepacia 1030ccagggtcag gcaggcgaca acgtcggtat cctgctgcgc ggcacgaagc gtgaagacgt 60103160DNABurkholderia pseudomallei 1031tcagggtcag gcgggcgaca acgtcggtat cctgctgcgc ggcacgaagc gtgaagacgt 60103260DNAStenotrophomonas maltophilia 1032ccagggtcag gcaggcgaca acgctggcct gctgctgcgc ggcaccaagc gtgacgacgt 60103360DNAPseudomonas aeruginosa 1033cgaaggtcgt gctggtgaga acgttggtat cctgctgcgt ggcaccaagc gtgaagacgt 60103460DNAKlebsiella pneumoniae 1034cgaaggccgt gctggtgaga acgtaggtgt tctgctgcgt ggtatcaaac gtgaagaaat 60103560DNAMycobacterium avium 1035ccagggccag gccggtgaca acgtcggtct gctgctgcgt ggtatcaagc gtgaggacgt 60103660DNAMycobacterium avium 1036ccagggccag gccggtgaca acgtcggtct gctgctgcgt ggtatcaagc gtgaggacgt 60103760DNAMycobacterium intracellulare 1037ccagggacag gccggcgaca acgtcggact gttgctgcgt ggcatcaagc gcgaggacgt 60103860DNAMycobacterium kansasii 1038ccagggtcag gccggtgaca acgtcgggct gttgctgcgt ggtgtcaagc gtgaggacgt 60103960DNAMycobacterium tuberculosis 1039ccagggccag gcgggcgaca acgttggttt gctgctgcgg ggcgtcaagc gcgaggacgt 60104060DNAMycobacterium tuberculosis 1040ccagggccag gcgggcgaca acgttggttt gctgctgcgg ggcgtcaagc gcgaggacgt 60104160DNAMycobacterium avium 1041ccagggccag gccggcgaca acgtcggtct gctggttcgt ggcatcaagc gcgaggacgt 60104260DNACorynebacterium diphtheriae 1042ctacaccgag gctggcgaca actgtggtct gcttctccgt ggcgttaagc gcgaagacgt 60104360DNANeisseria meningitidis 1043cgaaggtcag gcgggcgaca acgtaggcgt attgctgcgc ggtaccaaac gtgaagacgt 60104460DNANeisseria meningitidis 1044cgaaggtcaa gcaggcgaca acgtaggcgt attgctgcgc ggtaccaaac gtgaagacgt 60104560DNANeisseria meningitidis 1045cgaaggtcag gcgggcgaca acgtacgcgt attgctgcgc ggtaccaaac gtgaagacgt 60104659DNAMycoplasma pneumoniae 1046tgaacgtgga caagtattag ctaaacctgg ttcaattaaa cctcacaaac aatttgaag 59104759DNAMycoplasma pneumoniae 1047ggaacgtggt caagtgttag ctaaaccagg ttcgattaaa ccgcacaaga aatttaaag 59104859DNALegionella pneumophila 1048ggagcgtgga caggtattgg caaagccagg taccatcaag ccacacacca agtttgaag

59104959DNALegionella pneumophila 1049ggagcgtgga caggtattgg ctaagccagg taccatcaag ccacacacca agtttgaag 59105059DNALegionella pneumophila 1050ggagcgtgga caggtattgg cgaagccagg aaccatcaag ccacacacca agtttgaag 59105159DNALegionella pneumophila 1051ggagcgcgga caggtattgg ctaagccagg aaccatcaag ccacacacca agtttgaag 59105259DNALegionella longbeachiae 1052tgagcgtggt caggtattag ccaaaccagg tacaattaag cctcacacta aatttgaag 59105359DNAFusobacterium nucleatum 1053tgaaagagga caagttcttg ctaaaccagg aagtatccac cctcatacaa actttaaag 59105459DNAChlamydophila pneumoniae 1054tgaaagaggt atggtggttt gtcagcctaa cagcgtgaag cctcatacga aatttaagt 59105559DNAEnterococcus faecalis 1055cgaacgtgga caagtattag ctaaaccagc tacaatcact ccacacacaa aattcaaag 59105659DNAEnterococcus faecalis 1056cgaacgtgga caagtattag ctaaaccagc tacaatcact ccacacacaa aattcaaag 59105759DNAStaphylococcus aureus 1057acaacgtggt caagtattag ctgctcctgg ttcaattaca ccacatactg aatttaaag 59105859DNAStaphylococcus aureus 1058acaacgtggt caagtattag ctgctcctgg ttcaattaca ccacatactg aatttaaag 59105959DNAStaphylococcus aureus 1059acaacgtggt caagtattag ctgctcctgg ttcaattaca ccacatactg aattcaaag 59106059DNAStaphylococcus aureus 1060acaacgtggt caagtattag ctgctcctgg ttcaattaca ccacatactg aattcaaag 59106159DNAStaphylococcus aureus 1061acaacgtggt caagtattag ctgctcctgg ttcaattaca ccacatactg aattcaaag 59106259DNAStaphylococcus epidermidis 1062acaacgtggt caagtattag ctgctcctgg ttctattaca ccacacacaa aattcaaag 59106359DNAStaphylococcus epidermidis 1063acaacgtggt caagtattag ctgctcctgg ttctattaca ccacacacaa aattcaaag 59106459DNAStreptococcus mitis 1064cgaacgtgga caagttatcg ctaaaccagg ttcaatcaac ccacacacta aattcaaag 59106559DNAStreptococcus sanguis 1065cgaacgtgga caagttatcg ctaaaccagg ttcaatcaac ccacacacta aattcaagg 59106659DNAStreptococcus mitis 1066cgaacgtgga caagttattg ctaaaccagg ttcaatcaac ccacacacta aattcaaag 59106759DNAStreptococcus pneumoniae 1067cgaacgtgga caagttatcg ctaaaccagg ttcaatcaac ccacacacta aattcaaag 59106859DNAStreptococcus pyogenes 1068cgaacgtggt caagttattg ctaaaccaag ttcaatcaac ccacacacta aattcaaag 59106959DNAStreptococcus mutans 1069cgaacgtggt caagttcttg ctaaaccagg ttcaattcac ccacatacta aattcaaag 59107059DNAStreptococcus mutans 1070cgaacgtggt caagttcttg ctaaaccagg ttcaattcac ccacatacta aattcaaag 59107159DNAHaemophilus influenzae 1071cgaacgtggt caagtattag cgaaaccagg ttcaatcaca ccacacactg acttcgaat 59107259DNAMoraxella catarrhalis 1072tcaacgtggt caagtattgg ctaagccagg ttcaatcacc ccacacacca agtttgatg 59107359DNABordetella pertussis 1073cgagcgtggc caggtgctgg ccaagccggg ttcgatcaac ccgcacacgg acttcacgg 59107459DNABordetella parapertussis 1074cgagcgtggc caggtgctgg ccaagccggg ttcgatcaac ccgcacacgg acttcacgg 59107559DNABurkholderia cepacia 1075ggagcgcggt caggttctgg cgaagccggg ttcgatcacg ccgcacacgc acttcacgg 59107659DNABurkholderia pseudomallei 1076ggagcgcggc caggttctgg cgaagccggg ttcgatcacg ccgcacacgc acttcacgg 59107759DNAStenotrophomonas maltophilia 1077cgagcgtggc caggtgctgg ccaagccggg cacgatcaag ccgcacacca agttcgaag 59107859DNAPseudomonas aeruginosa 1078agagcgtggc caggtactgg ccaagccggg caccatcaag ccgcacacca agttcgagt 59107959DNAKlebsiella pneumoniae 1079cgaacgtggt caggtactgg ctaagccggg caccatcaac ccgcacacca agttcgaat 59108059DNAMycobacterium avium 1080cgagcgcggt caggtcgtca ccaagcccgg caccaccacg ccgcacaccg agttcgagg 59108159DNAMycobacterium avium 1081cgagcgcggt caggtcgtca ccaagcccgg caccaccacg ccgcacaccg agttcgagg 59108259DNAMycobacterium intracellulare 1082cgagcgcggt caggtcgtcg tgaagcccgg caccaccacg ccgcacaccg agttcgagg 59108359DNAMycobacterium kansasii 1083cgagcgcggc caggtcgtca tcaagcccgg caccacaacc ccgcacaccg agttcgagg 59108459DNAMycobacterium tuberculosis 1084cgagcgtggc caggttgtca ccaagcccgg caccaccacg ccgcacaccg agttcgaag 59108559DNAMycobacterium tuberculosis 1085cgagcgtggc caggttgtca ccaagcccgg caccaccacg ccgcacaccg agttcgaag 59108659DNAMycobacterium avium 1086cgagcgtggc caggttgtgg tcaagcccgg caccaccacc ccgcacaccg agttcgagg 59108759DNACorynebacterium diphtheriae 1087tgagcgtggc caggttgttg ttaagccagg cgcttacacc cctcacaccg agttcgagg 59108859DNANeisseria meningitidis 1088ggaacgcggt caggtattgg ctaaaccggg tactatcact cctcacacca aattcaaag 59108959DNANeisseria meningitidis 1089agagcgtggt caagtattgg ctaaaccggg tacaatcact cctcacacca agttcaaag 59109060DNANeisseria meningitidis 1090ggaacgcggt caggtattgg ccaaacccgg gtactatcac tcctcacacc aagttcaaag 60109160DNAMycoplasma pneumoniae 1091cagaaatcta tgctcttaaa aaagaagaag gtggaagaca tactccagta ttaaatggat 60109260DNAMycoplasma pneumoniae 1092cggaaatcta tgctttaaag aaggaagaag gtggtcgtca caccggtttc ttaaacggtt 60109360DNALegionella pneumophila 1093cagaagtgta tgtgttatcc aaggaagaag gcggacgtca cacaccattc tttaatggat 60109460DNALegionella pneumophila 1094cagaagtgta tgtattatcc aaggaagaag gcggacgtca cacaccattc tttaatggat 60109560DNALegionella pneumophila 1095cagaagtgta tgtattatcc aaggaagaag gcggacgtca cactccattc tttaatggat 60109660DNALegionella pneumophila 1096cagaagtgta tgtattatcg aaggaagaag gcggacgtca cactccattc tttaatggat 60109760DNALegionella longbeachiae 1097cggaagtata cgtgttatct aaagaagaag gtggacgaca taccccgttt ttcaatggat 60109860DNAFusobacterium nucleatum 1098gtgaagtcta tgtattaact aaagatgaag gaggaagaca cactccattt ttcacaggat 60109960DNAChlamydophila pneumoniae 1099cagctgttta cgttcttcag aaagaagaag gcggacgtca taagcctttc ttcagcggat 60110060DNAEnterococcus faecalis 1100ctgaagtata cgtattatca aaagaagaag gcggacgtca cactccattc ttcactaact 60110160DNAEnterococcus faecalis 1101ctgaagtata cgtattatca aaagaagaag gcggacgtca cactccattc ttcactaact 60110260DNAStaphylococcus aureus 1102cagaagtata cgtattatca aaagacgaag gtggacgtca cactccattc ttctcaaact 60110360DNAStaphylococcus aureus 1103cagaagtata cgtattatca aaagacgaag gtggacgtca cactccattc ttctcaaact 60110460DNAStaphylococcus aureus 1104cagaagtata cgtattatca aaagacgaag gtggacgtca cactccattc ttctcaaact 60110560DNAStaphylococcus aureus 1105cagaagtata cgtattatca aaagacgaag gtggacgtca cactccattc ttctcaaact 60110660DNAStaphylococcus aureus 1106cagaagtata cgtattatca aaagacgaag gtggacgtca cactccattc ttctcaaact 60110760DNAStaphylococcus epidermidis 1107ctgaagtata cgtattatct aaagatgaag gtggacgtca cactccattc ttcactaact 60110860DNAStaphylococcus epidermidis 1108ctgaagtata cgtattatct aaagatgaag gtggacgtca cactccattc ttcactaact 60110960DNAStreptococcus mitis 1109gtgaagttta catccttact aaagaagaag gtggacgtca tactccattc ttcaacaact 60111060DNAStreptococcus sanguis 1110gtgaagttta tatccttact aaagaagaag gcggacgtca cactccattc ttcaacaact 60111160DNAStreptococcus mitis 1111gtgaagttta catccttact aaagaagaag gtggacgtca cactccattc ttcaacaact 60111260DNAStreptococcus pneumoniae 1112gtgaagtcta catccttact aaagaagaag gtggacgtca cactccattc ttcaacaact 60111360DNAStreptococcus pyogenes 1113gtgaagtata tatcctttct aaagacgaag gtggacgtca cactccattc ttcaacaact 60111460DNAStreptococcus mutans 1114gtgaagttta tatccttact aaagaagaag gtggacgtca tacaccattc ttcaataact 60111560DNAStreptococcus mutans 1115gtgaagttta tatccttact aaagaggaag gtggacgtca tacaccattc ttcaataact 60111660DNAHaemophilus influenzae 1116cagaagtgta cgtattatca aaagatgaag gtggtcgtca tactccattc ttcaaaggtt 60111760DNAMoraxella catarrhalis 1117cagaagtata cgtgctatca aaagaagaag gtggtcgtca taccccattc ctaaatggct 60111860DNABordetella pertussis 1118ccgaggtgta cattctgtcc aaggaagagg gtggccgtca cacgccgttc ttcaacggct 60111960DNABordetella parapertussis 1119ccgaggtgta cattctgtcc aaggaagagg gcggccgtca cacgccgttc ttcaacggct 60112060DNABurkholderia cepacia 1120ccgaagtgta cgtgctgagc aaggacgaag gcggccgtca cacgccgttc ttcaacaact 60112160DNABurkholderia pseudomallei 1121ctgaagtgta cgtgctgagc aaggacgaag gcggccgcca cacgccgttc ttcaacaact 60112260DNAStenotrophomonas maltophilia 1122gcgaagtgta cgtcctgtcg aaggacgaag gcggccgcca caccccgttc ttcaacggct 60112360DNAPseudomonas aeruginosa 1123gcgaagtgta cgtgctgtcc aaggaagaag gtggtcgtca caccccgttc ttcaagggct 60112460DNAKlebsiella pneumoniae 1124ctgaagtgta catcctgtcc aaagacgaag gcggccgtca tactccgttc ttcaaaggct 60112560DNAMycobacterium avium 1125gccaggtcta catcctgtcc aaggacgagg gcggccggca cacgccgttc ttcaacaact 60112660DNAMycobacterium avium 1126gccaggtcta catcctgtcc aaggacgagg gcggccggca cacgccgttc ttcaacaact 60112760DNAMycobacterium intracellulare 1127gcagcgtcta catcctgtcc aaggacgagg gcggccggca cacgccgttc ttcaacaact 60112860DNAMycobacterium kansasii 1128gccaggttta catcctgtcc aaggacgagg gtggccggca cacgccgttc ttcaacaact 60112960DNAMycobacterium tuberculosis 1129gccaggtcta catcctgtcc aaggacgagg gcggccggca cacgccgttc ttcaacaact 60113060DNAMycobacterium tuberculosis 1130gccaggtcta catcctgtcc aaggacgagg gcggccggca cacgccgttc ttcaacaact 60113160DNAMycobacterium avium 1131gcagcgtcta catcctgtcc aaggacgagg gcggccgcca cacgccgttc ttcaacaact 60113260DNACorynebacterium diphtheriae 1132gctctgtcta cgttctgtcc aaggacgagg gtggccgcca caccccattc ttcgacaact 60113360DNANeisseria meningitidis 1133cagaagtata cgtactgagc aaagaagagg gtggtcgtca cactccgttc ttcgccaact 60113460DNANeisseria meningitidis 1134cagaagtata cgtactgagc aaagaagagg gcggccgcca taccccgttc ttcgccaact 60113560DNANeisseria meningitidis 1135cagacgtgta cgtactgagc aaagaagagg gcggccgcca tactccgttc ttcgccaact 60113660DNAMycoplasma pneumoniae 1136atagaccaca attctacttc agaactactg atgttactgg acaaatcaca cttgataaag 60113760DNAMycoplasma pneumoniae 1137accgtcccca attctacttc cgtactacag acgttactgg ttcgatttcc ctaccagaaa 60113860DNALegionella pneumophila 1138accgtccaca attctatttc agaaccactg acgtgacagg tacttgtgac ttgccatcag 60113938DNALegionella pneumophila 1139accgtccaca attctatttc agaaccactg acgtaaca 38114060DNALegionella pneumophila 1140accgtccaca attctatttc agaaccactg acgtgacagg tacttgtgac ttgccatcag 60114160DNALegionella pneumophila 1141accgtccaca attctatttc agaaccactg acgtgacagg tacttgtgac ttgccatcag 60114260DNALegionella longbeachiae 1142atagaccaca gttttatttt agaacaacag acgtaacagg aacttgtgat ttaccatctg 60114360DNAFusobacterium nucleatum 1143acagacctca attctatttt agaactactg atatcactgg tgcagtaact ttaccagatg 60114460DNAChlamydophila pneumoniae 1144acagacctca gttcttcttc cgtactacag acgtgacagg agtcgtaact cttcctgaag 60114560DNAEnterococcus faecalis 1145accgtcctca attctacttc cgtacaacag acgttactgg tgttgtagaa ttgccagaag 60114660DNAEnterococcus faecalis 1146accgtcctca attctacttc cgtacaacag acgttactgg tgttgtagaa ttgccagaag 60114760DNAStaphylococcus aureus 1147atcgtccaca attctatttc cgtactactg acgtaactgg tgttgttcac ttaccagaag 60114860DNAStaphylococcus aureus 1148atcgtccaca attctatttc cgtactactg acgtaactgg tgttgttcac ttaccagaag 60114960DNAStaphylococcus aureus 1149atcgtccaca attctatttc cgtactactg acgtaactgg tgttgttcac ttaccagaag 60115060DNAStaphylococcus aureus 1150atcgtccaca attctatttc cgtactactg acgtaactgg tgttgttcac ttaccagaag 60115160DNAStaphylococcus aureus 1151atcgtccaca attctatttc cgtactactg acgtaactgg tgttgttcac ttaccagaag 60115260DNAStaphylococcus epidermidis 1152atcgcccaca attctatttc cgtactactg acgtaactgg tgttgtaaac ttaccagaag 60115360DNAStaphylococcus epidermidis 1153atcgcccaca attctatttc cgtactactg acgtaactgg tgttgtaaac ttaccagaag 60115460DNAStreptococcus mitis 1154accgtccaca gttctacttc cgtacaactg acgtaactgg atctatcgaa cttccagctg 60115560DNAStreptococcus sanguis 1155accgtccaca gttctacttc cgtacaactg acgttacagg ttcaatcgaa cttccagcag 60115660DNAStreptococcus mitis 1156accgtccaca attctacttc cgtactactg acgttacagg ttcaatcgaa cttccagcag 60115760DNAStreptococcus pneumoniae 1157accgtccaca attctacttc cgtactactg acgttacagg ttcaatcgaa cttccagcag 60115860DNAStreptococcus pyogenes 1158accgtccaca attctacttc cgtacaactg acgtaacagg ttcaatcgaa cttccagcag 60115960DNAStreptococcus mutans 1159atcgtccaca attctacttc cgtacaactg acgtaactgg ttcaattgag ttgccagcag 60116060DNAStreptococcus mutans 1160atcgtccaca attctacttc cgtacaactg acgtaactgg ttcaattgag ttgccagcag 60116160DNAHaemophilus influenzae 1161accgtccaca attctatttc cgtacaacag acgtgactgg tacaatcgaa ttaccagaag 60116260DNAMoraxella catarrhalis 1162atcgtccaca gttctacttc cgtaccacag acgtaactgg tgccatcacc ctacaagaag 60116360DNABordetella pertussis 1163atcgtccgca gttctacttc cgcacgacgg acgtgaccgg cacgatcgac ctgccggcgg 60116460DNABordetella parapertussis 1164atcgtccgca gttctacttc cgcacgacgg acgtgaccgg cacgatcgac ctgccggcgg 60116513DNABurkholderia cepacia 1165accgtccgca gtt 13116660DNABurkholderia pseudomallei 1166accgtccgca gttctacttc cgtacgacgg acgtgacggg ctcgatcgag ctgccgaagg 60116760DNAStenotrophomonas maltophilia 1167accgtccgca gttctacttc cgcaccaccg acatcaccgg cgcagctgcg ctgccggaag 60116860DNAPseudomonas aeruginosa 1168accgtccgca gttctacttc cgtaccaccg atgtgaccgg taactgcgaa ctgccggaag 60116960DNAKlebsiella pneumoniae 1169accgtccgca gttctacttc cgtactactg acgtgactgg caccatcgaa ctgccggaag 60117060DNAMycobacterium avium 1170accgcccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgacg ctgccggagg 60117160DNAMycobacterium avium 1171accgcccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgacg ctgccggagg 60117260DNAMycobacterium intracellulare 1172accgtccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgacg ctgccggagg 60117360DNAMycobacterium kansasii 1173accgtccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgacg ctgccggagg 60117460DNAMycobacterium tuberculosis 1174accgtccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgaca ctgccggagg 60117560DNAMycobacterium tuberculosis 1175accgtccgca gttctacttc cgcaccaccg acgtgaccgg tgtggtgaca ctgccggagg 60117659DNAMycobacterium avium 1176accgcccgca gttctacttc cgtaccacgg acgtgaccgg cgtggtgacc ctccccgag 59117760DNACorynebacterium diphtheriae 1177accgcccaca gttctacttc cgcaccaccg acgttaccgg tgttgtgaag cttcctgagg 60117860DNANeisseria meningitidis 1178accgtccgca attctacttc cgtaccaccg acgtaaccgg cgcggttact ttggaagaag 60117960DNANeisseria meningitidis 1179accgtcccca attctacttc cgtaccaccg acgtaaccgg cgcggttact ttggaagaag 60118059DNANeisseria meningitidis 1180accgtccgca ttctacttcc gtaccaccga cgtaaccggc gcggttactt tggaagaag 59118160DNAMycoplasma pneumoniae 1181gtgttgaaat gattaaccca ggagataaca ctaagattac tgttgaactt atttctccaa 60118260DNAMycoplasma pneumoniae 1182acaccgaaat ggtgctacca ggtgacaata cctcgattac agttgaacta attgcaccaa 60118360DNALegionella pneumophila 1183gagttgaaat ggtaatgcct ggagataatg tgcaattagt tgttagcttg catgctccga 60118460DNALegionella pneumophila 1184gagttgaaat ggtaatgcct ggagataatg tgcaattagt tgttagcttg catgctccga 60118560DNALegionella pneumophila 1185gagttgaaat ggtaatgcct ggagataatg tgcaattagt tgttagcttg catgctccga 60118638DNALegionella longbeachiae 1186gagttgaaat ggtaatgcct ggagataacg tacagttg 38118721DNAFusobacterium nucleatum 1187gagtagaaat ggttatgcca g 21118860DNAChlamydophila pneumoniae 1188gaactgaaat ggtaatgcct ggagataacg ttgagcttga tgttgagctc attggaacag 60118931DNAEnterococcus faecalis 1189gtactgaaat ggtaatgcct ggtgataacg t 31119060DNAEnterococcus faecalis 1190gtactgaaat ggtaatgcct ggtgataacg ttgctatgga cgttgaatta attcacccaa 60119160DNAStaphylococcus aureus 1191gtactgaaat ggtaatgcct ggtgataacg ttgaaatgac agtagaatta atcgctccaa 60119260DNAStaphylococcus aureus 1192gtactgaaat ggtaatgcct ggtgataacg ttgaaatgac agtagaatta atcgctccaa 60119360DNAStaphylococcus aureus 1193gtactgaaat ggtaatgcct ggtgataacg ttgaaatgac agtagaatta atcgctccaa 60119460DNAStaphylococcus aureus 1194gtactgaaat ggtaatgcct ggtgataacg ttgaaatgac agtagaatta atcgctccaa 60119560DNAStaphylococcus aureus 1195gtactgaaat ggtaatgcct ggtgataacg ttgaaatgac agtagaatta atcgctccaa 60119660DNAStaphylococcus epidermidis 1196gtacagaaat ggttatgcct ggcgacaacg ttgaaatgac agttgaatta atcgctccaa 60119760DNAStaphylococcus epidermidis 1197gtacagaaat ggttatgcct ggcgacaacg ttgaaatgac agttgaatta atcgctccaa 60119844DNAStreptococcus mitis 1198gaactgaaat ggtaatgcct ggtgataacg tgactatcga cgtt 44119948DNAStreptococcus sanguis 1199gtactgaaat ggtaatgcct ggtgataacg taacaatcga cgttgagt 48120060DNAStreptococcus mitis 1200gtactgaaat ggtaatgcct ggtgataacg tgacaatcga cgttgagttg atccacccaa 60120160DNAStreptococcus pneumoniae 1201gtactgaaat ggtaatgcct ggtgataacg tgacaatcga cgttgagttg attcacccaa 60120260DNAStreptococcus pyogenes 1202gtacagaaat ggttatgcct ggtgataacg tgacaatcaa cgttgagttg atccacccaa 60120327DNAStreptococcus mutans 1203gtactgaaat ggttatgcct ggtgata 27120460DNAStreptococcus mutans 1204gtactgaaat ggttatgcct ggtgataacg ttactattga cgttgaattg atccatccaa 60120560DNAHaemophilus influenzae 1205gcgtggaaat ggtaatgcca ggcgataaca tcaagatgac agtaagctta atccacccaa 60120659DNAMoraxella catarrhalis 1206gcactgaaat ggttatgcca ggtgataacg ttgagatgag cgttgagcta atcacccaa 59120760DNABordetella pertussis 1207acaaggaaat ggtgctgccg ggcgacaacg tgtcgatgac cgtcaagctg ctggccccga 60120860DNABordetella parapertussis 1208acaaggaaat ggtgctgccg ggcgacaacg tgtcgatgac cgtcaagctg ctggccccga 60120960DNABurkholderia pseudomallei 1209acaaggaaat ggtgatgccg ggcgacaacg tgtcgatcac ggtgaagctg atcgcgccga 60121046DNAStenotrophomonas maltophilia 1210gcgtcgaaat ggtgatgccg ggtgacaacg tcaagatggt cgtcac

46121160DNAPseudomonas aeruginosa 1211gcgtagagat ggtaatgccg ggcgacaaca tcaagatggt tgtcaccctg atcgctccga 60121239DNAKlebsiella pneumoniae 1212gcgtagagat ggtaatgccg ggcgacaaca tcaaaatgg 39121360DNAMycobacterium avium 1213gcaccgagat ggtgatgccc ggtgacaaca ccaacatctc ggtgaagctg atccagcccg 60121460DNAMycobacterium avium 1214gcaccgagat ggtgatgccc ggtgacaaca ccaacatctc ggtgaagctg atccagcccg 60121557DNAMycobacterium intracellulare 1215gcaccgaaat ggtgatgccc ggtgacaaca ccaacatctc ggtcaagctg atccagc 57121627DNAMycobacterium kansasii 1216gcaccgagat ggtgatgccc ggtgaca 27121760DNAMycobacterium tuberculosis 1217gcaccgagat ggtgatgccc ggtgacaaca ccaacatctc ggtgaagttg atccagcccg 60121860DNAMycobacterium tuberculosis 1218gcaccgagat ggtgatgccc ggtgacaaca ccaacatctc ggtgaagttg atccagcccg 60121960DNACorynebacterium diphtheriae 1219gcaccgagat ggtcatgcct ggcgacaacg tcgacatgtc cgtcaccctg atccagcctg 60122060DNANeisseria meningitidis 1220gtgtagaaat ggtaatgccg ggtgaaaacg taaccatcac cgtagaactg attgcgccta 60122160DNANeisseria meningitidis 1221gtgtggaaat ggtaatgccg ggcgagaacg taaccatcac cgtagaactg attgcgccta 60122259DNANeisseria meningitidis 1222gagtggaaat ggtaatgcct ggtgagaacg taaccatcac cgtagactga ttgcgtcta 59122359DNAMycoplasma pneumoniae 1223ttgctgttga agaaggaagt aaattctcaa tccgtgaagg tggaagaaca gtaggtgct 59122459DNAMycoplasma pneumoniae 1224ttgcttgtga aaaaggtagt aagttctcca tccgtgaagg tggtcgaacg gttggtgct 59122559DNALegionella pneumophila 1225ttgcgatgga tgaaggttta agattcgcaa ttagagaggg tggccgaact gttggcgcc 59122659DNALegionella pneumophila 1226ttgcgatgga tgaaggttta agattcgcaa ttagagaggg tggccgaact gttggcgcc 59122759DNALegionella pneumophila 1227ttgcgatgga tgagggttta agattcgcaa ttagagaggg tggccgaact gttggcgcc 59122859DNAChlamydophila pneumoniae 1228ttgctcttga agaaggaatg agatttgcaa ttcgtgaagg tggtcgtact atcggcgct 59122959DNAEnterococcus faecalis 1229tcgctatcga agacggaact cgtttctcta ttcgtgaagg cggacgtact gtaggttca 59123059DNAStaphylococcus aureus 1230tcgcgattga agacggtact cgtttctcaa tccgcgaagg tggacgtact gtaggatca 59123159DNAStaphylococcus aureus 1231tcgcgattga agacggtact cgtttctcaa tccgcgaagg tggacgtact gtaggatca 59123259DNAStaphylococcus aureus 1232tcgcgattga agacggtact cgtttctcaa tccgtgaagg tggacgtact gtaggatca 59123359DNAStaphylococcus aureus 1233tcgcgattga agacggtact cgtttctcaa tccgtgaagg tggacgtact gtaggatca 59123459DNAStaphylococcus aureus 1234tcgcgattga agacggtact cgtttctcaa tccgtgaagg tggacgtact gtaggatca 59123559DNAStaphylococcus epidermidis 1235tcgctatcga agacggaact cgtttctcaa ttcgtgaagg tggacgtact gttggatca 59123659DNAStaphylococcus epidermidis 1236tcgctatcga agacggaact cgtttctcaa ttcgtgaagg tggacgtact gttggatca 59123759DNAStreptococcus mitis 1237tcgccgtaga acaaggtact acattctcta tccgtgaggg tggacgtact gttggttca 59123859DNAStreptococcus pneumoniae 1238tcgccgtaga acaaggtact acattctcta tccgtgaggg tggacgtact gttggttca 59123959DNAStreptococcus pyogenes 1239tcgccgtaga acaaggtact actttctcaa tccgtgaagg tggacgtact gttggttca 59124059DNAStreptococcus mutans 1240tcgctgttga acaaggtact actttctcta ttcgtgaagg tggacgtact gttggttct 59124159DNAHaemophilus influenzae 1241ttgcgatgga tcaaggttta cgtttcgcaa tccgtgaagg tggccgtaca gtaggtgca 59124211DNAMoraxella catarrhalis 1242tcgcatggac a 11124359DNABordetella pertussis 1243tcgccatgga agaaggtctg cgtttcgcca tccgtgaagg cggtcgtacc gtcggcgcc 59124459DNABordetella parapertussis 1244tcgccatgga agaaggtctg cgtttcgcca tccgtgaagg cggtcgtacc gtcggcgcc 59124559DNABurkholderia pseudomallei 1245tcgcgatgga agaaggtctg cgcttcgcga tccgcgaagg cggtcgcacc gtcggcgcc 59124659DNAPseudomonas aeruginosa 1246tcgccatgga agatggcctg cgcttcgcga tccgcgaagg cggccgtacc gttggcgcc 59124710DNAKlebsiella pneumoniae 1247cccccccccc 10124859DNAMycobacterium avium 1248tcgccatgga cgagggtctg cggttcgcca tccgcgaggg tggtcgcacc gtcggcgcc 59124959DNAMycobacterium avium 1249tcgccatgga cgagggtctg cggttcgcca tccgcgaggg tggtcgcacc gtcggcgcc 59125059DNAMycobacterium tuberculosis 1250tcgccatgga cgaaggtctg cgtttcgcga tccgcgaggg tggccgcacc gtgggcgcc 59125159DNAMycobacterium tuberculosis 1251tcgccatgga cgaaggtctg cgtttcgcga tccgcgaggg tggccgcacc gtgggcgcc 59125259DNACorynebacterium diphtheriae 1252tcgctatgga tgagggcctg cgcttcgcta tccgcgaggg ctcccgcacc gtcggcgct 59125359DNANeisseria meningitidis 1253tcgctatgga agaaggcctg cgctttgcga ttcgcgaagg cggccgtacc gtgggtgcc 59125459DNANeisseria meningitidis 1254tcgctatgga agaaggtttg cgctttgcga ttcgcgaagg cggccgtacc gtgggtgcc 59125544DNANeisseria meningitidis 1255tcgctatgga agagctgcgc ttgcgtcgtg tcgcgcgtgt ccat 44125627DNAMycoplasma pneumoniae 1256ggtacagtaa ctaaagttat taagtaa 27125727DNAMycoplasma pneumoniae 1257ggttcagtca cggaagtgct tgaatag 27125827DNALegionella pneumophila 1258ggtgtagtcg ctaaaataat cgagtaa 27125927DNALegionella pneumophila 1259ggtgtagtcg ctaaaataat cgagtaa 27126027DNALegionella pneumophila 1260ggtgtagtcg ctaaaataat cgagtaa 27126127DNAChlamydophila pneumoniae 1261ggaacgattt caaagatcaa tgcttaa 27126227DNAEnterococcus faecalis 1262ggcgttgtta ctgaaatcgt taaataa 27126327DNAStaphylococcus aureus 1263ggcgttgtta ctgaaatcat taaataa 27126427DNAStaphylococcus aureus 1264ggcgttgtta ctgaaatcat taaataa 27126527DNAStaphylococcus aureus 1265ggcgttgtta ctgaaatcat taaataa 27126627DNAStaphylococcus aureus 1266ggcgttgtta ctgaaatcat taaataa 27126727DNAStaphylococcus aureus 1267ggcgttgtta ctgaaatcat taaataa 27126827DNAStaphylococcus epidermidis 1268ggcgttgtaa ctgaaatctt tgaataa 27126927DNAStaphylococcus epidermidis 1269ggcgttgtaa ctgaaatctt tgaataa 27127027DNAStreptococcus mitis 1270ggtatggtta cagaaatcga agcttaa 27127127DNAStreptococcus pneumoniae 1271ggtatggtta cagaaatcga agcttaa 27127227DNAStreptococcus pyogenes 1272ggtatcgttt cagaaatcga agcttaa 27127327DNAStreptococcus mutans 1273ggtatcgttt cagaaatcga agcttaa 27127427DNAHaemophilus influenzae 1274ggcgttgttg cgaaaatcat caaataa 27127527DNABordetella pertussis 1275ggcgtcgtcg ccaagatcat caagtaa 27127627DNABordetella parapertussis 1276ggcgtcgtcg ctaagatcat caagtaa 27127727DNABurkholderia pseudomallei 1277ggcgtcgtcg ccaagatcat cgagtaa 27127827DNAPseudomonas aeruginosa 1278ggcgtggttg ccaagatcat cgagtaa 27127910DNAKlebsiella pneumoniae 1279aaaaaaaaaa 10128027DNAMycobacterium avium 1280ggccgggtcg tcaagatcat caagtag 27128127DNAMycobacterium avium 1281ggccgggtcg tcaagatcat caagtag 27128227DNAMycobacterium tuberculosis 1282ggccgggtca ccaagatcat caagtag 27128327DNAMycobacterium tuberculosis 1283ggccgggtca ccaagatcat caagtag 27128427DNACorynebacterium diphtheriae 1284ggtcgcgtta ccaagatcat caagtaa 27128527DNANeisseria meningitidis 1285ggcgtggttt cttctgttat cgcttaa 27128627DNANeisseria meningitidis 1286ggcgtggttt cttctgttat cgcttaa 27

Claims

1-29. (canceled)

30. A method for the simultaneous detection and/or identification of several microorganisms in a test sample comprising: (a) providing a test sample suspected of containing one or more target microorganisms; (b) releasing, isolating and/or concentrating polynucleic acids from said microorganisms from said test sample, if present in the test sample, the or each polynucleic acid comprising at least a portion of a tuf gene variable region; (c) amplifying at least a portion of said tuf gene variable region in said polynucleic acid with a primer pair consisting of SEQ ID NO. 394 and SEQ ID NO. 395 or with a primer pair consisting of SEQ ID NO. 396 and SEQ ID NO. 395 to produce an amplified product; (d) contacting said amplified product with at least one probe or combination thereof selected from the group consisting of SEQ ID NOs:12 to 393 for a time and under conditions sufficient for hybridization to take place; and (e) detecting any hybridization which has taken place in step (d); wherein the presence or absence of hybridization is indicative of the presence or absence of said one or more microorganisms in said test sample, and wherein the one or more microorganisms are selected from the group consisting of Acinetobacter, Bordetella, Burkholderia, Campylobacter, Chlamydophila, Chlamydia, Clostridium, Corynebacterium, Enterococcus, Enterobacter, Escherichia, Fusobacterium, Haemophilus, Helicobacter species, Klebsiella, Legionella, Listeria, Moraxella Mycobacterium, Mycoplasma, Neisseria, Pseudomonas, Serratia, Staphylococcus, Stenotrophomonas, Streptococcus, Vibrio, and Yersinia species.

31. The method of claim 30, wherein the tuf gene variable region in said polynucleic acid consists essentially of nucleotides 108-220, 393-591, 708-774, 792-816, and/or 885-945 of SEQ ID NOs.:1 to 11.

32. The method of claim 30, wherein the one or more microorganisms are selected from the group consisting of Acinetobacter baumanii, Bordetella pertussis, Burkholderia cepacia, Campylobacter jejuni, Chlamydophyla abortus, Chlamydia pneumoniae, Clostridium perfringens, Clostridium tetani, Corynebacterium diphtheriae, Enterobacter cloacae, Enterococcus faecalis, Escherichia coli, Fusobacterium neucleatum, Haemophilus influenzae, Helicobacter pylori, Helicobacter hepaticus, Klebsiella pneumoniae, Legionella longbeachiae, Legionella pneumophila, Listeria monocytogenes, Moraxella catarrhalis, Mycobacterium tuberculosis, Mycoplasma pneumoniae, Neisseria gonorrhoeae, Neisseria meningitides, Pseudomonas aeruginosa, Staphylococcus aureus, Staphyloccoccus epidermidis, Staphylococcus saprophyticus, Stenotrophomonas maltophilia, Streptococcus pneumoniae, Streptococcus pyogenes, Streptococcus mutans, Streptococcus sanguinis, Serratia marcescens, Yersinia pestis, and Yersinia pseudotuberculosis.

33. The method of claim 30, wherein the test sample is a sputum sample.

34. A microarray comprising at least one probe selected from the group consisting of SEQ ID NOs: 12 to 393 for use in simultaneous detection and/or identification of several microorganisms in a test sample, wherein the microorganisms are selected from the group consisting of Acinetobacter, Bordetella, Burkholderia, Campylobacter, Chlamydophila, Chlamydia, Clostridium, Corynebacterium, Enterococcus, Enterobacter, Escherichia, Fusobacterium, Haemophilus, Helicobacter species, Klebsiella, Legionella, Listeria, Moraxella Mycobacterium, Mycoplasma, Neisseria, Pseudomonas, Serratia, Staphylococcus, Stenotrophomonas, Streptococcus, Vibrio, and Yersinia species.

35. A method for diagnosing a bacterial infection in a subject, said method comprising: a) obtaining polynucleic acids from a test sample taken from said subject suspected of containing one or more target microorganisms; b) releasing, isolating and/or concentrating polynucleic acids from said microorganism from said test sample, if present in the test sample, the or each polynucleic acid comprising at least a portion of a tuf gene variable region; c) amplifying at least a portion of said tuf gene variable region in said polynucleic acids with a primer pair consisting of SEQ ID NO. 394 and SEQ ID NO. 395 or with a primer pair consisting of SEQ ID NO. 396 and SEQ ID NO. 395 to produce an amplified product; d) contacting said amplified product with a microarray according to claim 34 for a time and under conditions sufficient to form one or more hybridization complexes; and e) detecting any hybridization which has taken place in step d), wherein the presence of hybridization is indicative of the presence of bacterial infection, wherein the bacterial infection is caused by a microorganism selected from the group consisting of Acinetobacter, Bordetella, Burkholderia, Campylobacter, Chlamydophila, Chlamydia, Clostridium, Corynebacterium, Enterococcus, Enterobacter, Escherichia, Fusobacterium, Haemophilus, Helicobacter species, Klebsiella, Legionella, Listeria, Moraxella Mycobacterium, Mycoplasma, Neisseria, Pseudomonas, Serratia, Staphylococcus, Stenotrophomonas, Streptococcus, Vibrio, and Yersinia species.

36. A kit for the detection and/or identification of several microorganisms simultaneously in a test sample, comprising: (a) at least one of a first primer pair consisting of SEQ ID NO. 394 and SEQ ID NO. 395 or and a second primer pair consisting of SEQ ID NO. 396 and SEQ ID NO. 395 allowing amplification of at least a portion of a tuf gene variable region; (b) the microarray of claim 34; (c) a buffer or components necessary to produce the buffer enabling a hybridization reaction between the probes contained in said microarray and polynucleic acid present in an amplified product; (d) a solution or components necessary for producing the solution enabling washing of hybrids formed under appropriate wash conditions; and (e) optionally, a means for detecting hybrids.

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