Supplemental Table 9. CRISPR Spacer Homologues

CRISPR Spacer Type / Microbe Type / Homologues Identified
GHI
Bacteria / Methanocaldococcus infernus ME
VSI
Bacteria / Veillonella parvula DSM 2008
LBI
Bacteria / Dictyoglomus turgidum DSM 6724
Leptotrichia buccalis DSM 1135
Sebaldella termitidis ATCC 33386
Virus / Bacteriophage Tuc2009
SGII
Bacteria / Caldicellulosiruptor hydrothermalis 108
Clostridium difficile 630
Clostridium difficile BI9
Clostridium difficile IlvD
Clostridium difficile M68
Clostridium perfringens
Enterococcus faecalis
Enterococcus faecium F9631160-1
Enterococcus hirae
Faecalibacterium prausnitzii L2/6
Lactobacillus johnsonii DPC 6026
Lactobacillus johnsonii G41
Neisseria gonorrheae MS11
Neisseria gonorrhoeae 492
Neisseria gonorrhoeae 668
Staphylococcus lentus
Staphylococcus aureus CM05
Staphylococcus intermedius
Staphylococcus pseudintermedius ED99
Staphylococcus pseudintermedius C2597
Streptococcus agalactiae
Streptococcus equi subsp. equi 4047
Streptococcus gordonii CH1
Streptococcus milleri
Streptococcus mitis B6
Streptococcus oralis Uo5
Streptococcus parasanguinis ATCC15912
Streptococcus pneumoniae 670-6B
Streptococcus pneumoniae 70585
Streptococcus pneumoniae AP200
Streptococcus pneumoniae ATCC 700669
Streptococcus pneumoniae CGSP14
Streptococcus pneumoniae 2218
Streptococcus pneumoniae K-65
Streptococcus pneumoniae K-96
Streptococcus pneumoniae G54
Streptococcus pneumoniae Hungary19A-6
Streptococcus pneumoniae 11876
Streptococcus pneumoniae 11930
Streptococcus pneumoniae Pn302
Streptococcus pneumoniae PS5646
Streptococcus pneumoniae PW1760
Streptococcus pneumoniae PW1791
Streptococcus pneumoniae PW1840
Streptococcus pneumoniae PW1981
Streptococcus pneumoniae PW1996
Streptococcus pneumoniae PW712
Streptococcus pneumoniae PW735
Streptococcus pneumoniae PW778
Streptococcus pneumoniae PW868
Streptococcus pneumoniae PW899
Streptococcus pneumoniae JJA
Streptococcus pneumoniae OXC141
Streptococcus pneumoniae P1031
Streptococcus pneumoniae SPN034156
Streptococcus pneumoniae SPN034183
Streptococcus pneumoniae SPN994038
Streptococcus pneumoniae SPN994039
Streptococcus pneumoniae TCH8431/19A
Streptococcus pneumoniae TIGR4
Streptococcus pneumoniae 11928
Streptococcus pneumoniae 11930
Streptococcus pneumoniae 9409
Streptococcus pneumoniae H034800032
Streptococcus pneumoniae 23771
Streptococcus pseudopneumoniae IS7493
Streptococcus pyogenes Alab49
Streptococcus pyogenes KuoR21
Streptococcus pyogenes AncR14
Streptococcus pyogenes Manfredo
Streptococcus pyogenes MGAS5005
Streptococcus pyogenes MGAS8232
Streptococcus pyogenes NZ131
Streptococcus pyogenes Sp12
Streptococcus pyogenes Sp5
Streptococcus salivarius JIM8777
Streptococcus sanguinis SK36
Streptococcus suis BM407
Streptococcus suis D12
Streptococcus suis 32457
Streptococcus suis JS14
Streptococcus thermophilus CNRZ1066
Streptococcus thermophilus WTphi2972+S4
Streptococcus thermophilus WTphi2972+S5
Streptococcus thermophilus WTphi2972+S6
Streptococcus thermophilus WTphi2972+S7
Streptococcus thermophilus WTphi2972+S8
Streptococcus thermophilus WTphi858+S3
Streptococcus thermophilus WTphi858phi2972+S13S14
Streptococcus thermophilus WTphi858phi2972+S9S10S11S12
Streptococcus thermophilus LMG 18311
Streptococcus thermophilus CNRZ 1100
Streptococcus thermophilus CNRZ 385
Streptococcus thermophilus CNRZ 388
Streptococcus thermophilus CNRZ 703
Streptococcus thermophilus DGCC292
Streptococcus thermophilus DGCC47
Streptococcus thermophilus DGCC6297
Streptococcus thermophilus DGCC66
Streptococcus thermophilus DGCC766
Streptococcus thermophilus DGCC7710
Streptococcus thermophilus DGCC7778
Streptococcus thermophilus DGCC7785
Streptococcus thermophilus DGCC7796
Streptococcus thermophilus DGCC7806
Streptococcus thermophilus DGCC7809
Streptococcus thermophilus DGCC7967
Streptococcus thermophilus DGCC7981
Streptococcus thermophilus DGCC7984
Streptococcus thermophilus DGCC8234
Streptococcus thermophilus DGCC938
Streptococcus thermophilus DGCC944
Streptococcus thermophilus E2
Streptococcus thermophilus JIM 70
Streptococcus thermophilus JIM 72
Streptococcus thermophilus JIM 76
Streptococcus thermophilus JIM 8229
Streptococcus thermophilus JIM 8230
Virus / Bacteriophage Dp-1
Bacteriophage EJ-1
Bacteriophage T270
Bacteriophage Cp-1
Bacteroiphage SK137
Streptococcus pyogenes phage T12
Streptococcus mitis phage SM1
Streptococcus phage 5093
Streptococcus phage 858
Streptococcus phage Abc2
Streptococcus phage ALQ13.2
Streptococcus phage Cp-1 DNA
Streptococcus phage Dp-1
Streptococcus phage M102
Streptococcus phage PH10
Streptococcus phage PH15
Streptococcus phage phi-SsUD.1
Streptococcus phage V22
Streptococcus phage YMC-2011
Streptococcus pneumoniae bacteriophage MM1
Streptococcus pneumoniae bacteriophage MM1 1998
Streptococcus thermophilus bacteriophage 2972
Streptococcus thermophilus bacteriophage DT1
Streptococcus thermophilus bacteriophage DT4
Streptococcus thermophilus bacteriophage MD1
Streptococcus thermophilus bacteriophage MD2
Streptococcus thermophilus bacteriophage Q5
Streptococcus thermophilus bacteriophage Sfi19
Plasmid/Transposon / Bacillus sp. BS-01 pBS-01
Enterococcus pAM-beta-1
Enterococcus faecalis pLG2
Enterococcus faecalis pSL1
Enterococcus faecalis pTW9
Enterococcus faecalis pWZ1668
Enterococcus faecalis pWZ7140
Enterococcus faecalis pWZ909
Enterococcus faecalis DS5 pAMbeta1
Enterococcus faecalis V583 pTEF1
Enterococcus faecium p5753cB
Enterococcus faecium pRUM
Enterococcus faecium pS177
Enterococcus faecium pUW786
Enterococcus faecium 64/3xUW2774 pLG1
Escherichia coli str. O102-ST405 pETN48
Lactobacillus acidophilus 30SC pRKC30SC1
Lactobacillus crispatus CHCC3692 Tn3692
Lactobacillus fermentum Plme300
Lactobacillus plantarum pLFE1
Lactobacillus reuteri pLUL631
Lactobacillus reuteri pTE15
Lactobacillus reuteri pTE44
Lactobacillus reuteri pTE80
Lactococcus garvieae pKL0018
Macrococcus caseolyticus JCSC5402 pMCCL2
Pediococcus acidilactici pEOC01
Staphylococcus aureus pAFS11
Staphylococcus aureus pI258
Staphylococcus aureus CM05
Staphylococcus aureus Tn551
Streptococcus agalactiae pIP501
Streptococcus cristatus Tn6002
Streptococcus faecalis pAM-beta1
Streptococcus parasanguinis pFW213
Streptococcus pneumoniae Tn2017
Streptococcus pneumoniae Tn5253
Streptococcus pneumoniae pSpnP1
Streptococcus pneumoniae Tn1311
Streptococcus pneumoniae Tn1545
Streptococcus pneumoniae Tn2010
Streptococcus pneumoniae Tn6003
Streptococcus pneumoniae Tn917
Streptococcus pseudopneumoniae IS7493 pDRPIS7493
Streptococcus pyogenes Tn1116
Streptococcus pyogenes Tn3872
Streptococcus pyogenes pBT233
Streptococcus pyogenes pSM19035
Streptococcus thermophilus pER341
Streptococcus thermophilus pER35
Streptococcus thermophilus pER36
Tn10dCamRCP2
Vector pJIR1456
Vector pJIR1457
Vector pH2515
Vector pTN1
Vector pAJ005
Vector pMHL120
Vector pT1NX
Vector pFGV356N
Vector pAG101
Vector pGh9:ISS1
Vector pMUTIN2
Vector pSMB47
Vector pIP1527
Vector pIlo8
Vector pKS1
Vector pBKGT
Vector pALH109
Vector pALH122
Vector pVA838
Vector pAZILcos
Vector pELS100
Vector pELS200
Vector pHS17
Vector pLES003 DNA
Vector pLPV111
Vector pMSP3535-FT
Vector pMSP3535H3
Vector pMSP3535-RT
Vector pMTL82254
Vector pUCYIT356N
Vector pERM-ex1
Vector pHT3AG
Vector pLIV1
Vector pCAM45
Vector pNZ5319
Vector pAM77
SGI
Bacteria / Bhargavaea sp. DMV42A
Campylobacter jejuni IA3902
Campylobacter jejuni M1
Clostridiales genomosp. BVAB3
Clostridium cellulovorans 743B
Clostridium difficile 630
Clostridium difficile M68
Clostridium saccharolyticum-like K10
Coprococcus sp. ART55/1
Enterococcus faecalis 62
Enterococcus faecium C68
Escherichia coli CW4
Eubacterium cylindroides T2-87
Filifactor alocis ATCC35896
Lactobacillus sakei Rits9
Lactococcus lactis subsp. cremoris A76
Lactococcus lactis subsp. cremoris SK11
Lactococcus lactis subsp. lactis CV56
Mobiluncus curtisii ATCC43063
Neisseria gonorrheae MS11
Roseburia intestinalis XB6B4
Staphylococcus aureus subsp. aureus Mu3
Staphylococcus aureus subsp. aureus Mu50 D
Staphylococcus aureus subsp. aureus ST398
Staphylococcus aureus subsp. aureus JKD6008
Staphylococcus aureus subsp. aureus T0131
Staphylococcus aureus subsp. aureus TW20
Staphylococcus pseudintermedius ED99
Staphylococcus pseudintermedius HKU10-03
Staphylococcus rostri
Streptococcus agalactiae 2603V/R
Streptococcus equi subsp. zooepidemicus H70
Streptococcus equi subsp. zooepidemicus MGCS10565
Streptococcus gallolyticus ATCC43143
Streptococcus gallolyticus UCN34
Streptococcus gordonii CH1
Streptococcus mitis B6
Streptococcus mutans NN2025
Streptococcus mutans UA159
Streptococcus oralis Uo5
Streptococcus parasanguinis ATCC15912
Streptococcus parauberis
Streptococcus pasteurianus ATCC43144
Streptococcus pneumoniae 670-6B
Streptococcus pneumoniae 70585
Streptococcus pneumoniae AP200
Streptococcus pneumoniae ATCC700669
Streptococcus pneumoniae CGSP14
Streptococcus pneumoniae D39
Streptococcus pneumoniae G54
Streptococcus pneumoniae Hungary19A-6
Streptococcus pneumoniae ICESpn11876
Streptococcus pneumoniae ICESpn11930
Streptococcus pneumoniae INV104
Streptococcus pneumoniae INV200 g
Streptococcus pneumoniae JJA
Streptococcus pneumoniae OXC141
Streptococcus pneumoniae P1031
Streptococcus pneumoniae R6
Streptococcus pneumoniae SPN032672
Streptococcus pneumoniae SPN033038
Streptococcus pneumoniae SPN034156
Streptococcus pneumoniae SPN034183
Streptococcus pneumoniae SPN994038
Streptococcus pneumoniae SPN994039
Streptococcus pneumoniae Taiwan19F-14
Streptococcus pneumoniae TCH8431/19A
Streptococcus pneumoniae TIGR4
Streptococcus pseudopneumoniae IS7493
Streptococcus pyogenes Alab49
Streptococcus pyogenes ICESp2905
Streptococcus pyogenes MGAS2096
Streptococcus pyogenes MGAS5005
Streptococcus pyogenes MGAS8232
Streptococcus salivarius 57.I
Streptococcus salivarius CCHSS3
Streptococcus salivarius JIM8777
Streptococcus sanguinis SK36
Streptococcus suis 05ZYH33
Streptococcus suis 98HAH33
Streptococcus suis A7
Streptococcus suis BM407
Streptococcus suis D12
Streptococcus suis D9
Streptococcus suis GZ1
Streptococcus suis ICESsu32457
Streptococcus suis JS14
Streptococcus suis P1/7
Streptococcus suis SC84
Streptococcus suis SS12
Streptococcus suis ST1
Streptococcus suis ST3
Streptococcus suis 89-999
Streptococcus thermophilus CNRZ1066
Streptococcus thermophilus JIM 8232
Streptococcus thermophilus LMD-9
Streptococcus thermophilus LMG 18311
Streptococcus thermophilus ND03
Streptococcus thermophilus J34
Streptococcus thermophilus DGCC7710
Streptococcus agalatiae
Uncultured bacterium TE1
Uncultured bacterium MID12
Ureaplasma urealyticum
Virus / Bacteriophage Dp-1
Bacteriophage EJ-1
Bacteriophage TP901-1
Bacteriophage TP901-1
Bacteriophage Tuc2009
Bacteriophage Cp-1
Bacteriophage Cp-7
Bacteriophage Cp-9
Lactococcus phage P335
Lactococcus phage ul36
Lactococcus phage ul36.k1
Streptococcus phage SK137
Streptococcus pyogenes phage
Streptococcus mitis phage
Streptococcus mutans phage M102
Streptococcus phage 5093
Streptococcus phage 858
Streptococcus phage Abc2
Streptococcus phage ALQ13.2
Streptococcus phage Cp-1 DNA
Streptococcus phage Dp-1
Streptococcus phage M102
Streptococcus phage PH10
Streptococcus phage PH15
Streptococcus phage phi-m46.1
Streptococcus phage V22
Streptococcus phage YMC-2011
Streptococcus pneumoniae bacteriophage MM1
Streptococcus pneumoniae bacteriophage MM1 1998
Streptococcus pneumoniae bacteriophage PT321
Streptococcus thermophilus bacteriophage 2972
Streptococcus thermophilus bacteriophage 7201
Streptococcus thermophilus bacteriophage DT1
Streptococcus thermophilus bacteriophage DT1.1
Streptococcus thermophilus bacteriophage DT4
Streptococcus thermophilus bacteriophage MD2
Streptococcus thermophilus bacteriophage Q5
Streptococcus thermophilus bacteriophage Sfi11
Streptococcus thermophilus bacteriophage SFi18
Streptococcus thermophilus bacteriophage Sfi19
Streptococcus thermophilus bacteriophage Sfi21
Streptococcus thermophilus bacteriophage O1205
Plasmid/Transposon / Actinobacillus pleuropneumoniae p13142
Campylobacter coli pCC31
Campylobacter jejuni pCG8245
Campylobacter jejuni pTet
Campylobacter jejuni 81-176 pTet
Campylobacter jejuni subsp. jejuni 81-176
Campylobacter jejuni subsp. jejuni ICDCCJ07001
Campylobacter jejuni subsp. jejuni S3 pTet
Clostridium difficile Tn5397
Clostridium difficile Tn916
Clostridium perfringens CW459 tet(M)
Enterococcus faecalis pCF10
Enterococcus faecium pM7M2
Enterococcus faecium TC 6 Tn6086
Lactococcus lactis pSK11B
Neisseria gonorrhoeae 5050 pEP5050
Neisseria gonorrhoeae 5289 pEP5289
Pasteurella multocida pB1006
Staphylococcus rostri tn916
Streptococcus agalactiae GB2001 pGB2001
Streptococcus agalactiae GB2002 pGB2002
Streptococcus bovis pSBO2
Streptococcus cristatus Tn6002
Streptococcus oralis Tn6087
Streptococcus parasanguinis pFW213
Streptococcus pneumoniae Tn5252
Streptococcus pneumoniae Tn5253
Streptococcus pneumoniae Tn1545
Streptococcus pneumoniae PspnP1
Streptococcus pneumoniae DP1322 Tn5253
Streptococcus pneumoniae Tn2010
Streptococcus pneumoniae TN5251
Streptococcus pneumoniae Tn6003
Streptococcus pneumoniae Tn916
Streptococcus pseudopneumoniae IS7493 pDRPIS7493
Streptococcus pyogenes 9116-03 pRW35
Streptococcus pyogenes Tn3872
Streptococcus pyogenes pGA2000
Streptococcus thermophilus pER16
Vector pPP1
Vector pPP2
Vector pTP2
Vector pTP1