Array 1 1304931-1307052 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1304931 29 100.0 39 ............................. CAATATATTCTAGCAGGAGCAGATTTAGGAGCTTTACAA 1304999 29 100.0 35 ............................. ATTCTTTATACAGAGAAACACGATACTATTTACAG 1305063 29 100.0 36 ............................. ATATCTTTGTACTCTTGATTTTCCAGCTTTGATATA 1305128 29 100.0 36 ............................. AATTGCATAATATTAGAGAGTTTAATACCATCAAGT 1305193 29 100.0 37 ............................. GATGGTAAAATGGGAGATACTTTCTTTGGATTAACAG 1305259 29 100.0 34 ............................. TTGCTTATACTTACAACTTTTTCTGCTGTAGCAT 1305322 29 100.0 36 ............................. AAAACTGTTTCTACTTTTTTAGTCCCAAGTAATTCC 1305387 29 100.0 37 ............................. CGCATTTTTGCTTTTATATTGCTTCTTCTATCTTCTA 1305453 29 100.0 38 ............................. TCTAAAATATCCTCACAACTCCTGTAATTGTATTTTCT 1305520 29 100.0 37 ............................. TGGTTTACTAAGAAAATAACGGATTTTTAAGAGAAAA 1305586 29 100.0 37 ............................. TTTGATGAAAAAGAAGAATATAAGAGGGATGTGGCAA 1305652 29 100.0 36 ............................. TAACTCCAAACTCCGTAAGTCTTGCCATTTCTCCAA 1305717 29 100.0 36 ............................. GAGTATCAAGAGACCAGGGAAAGGCAGGTAAAGCAG 1305782 29 100.0 36 ............................. AATGGTAAAATGAAGGCATAATAAATTTCAATATAG 1305847 29 100.0 39 ............................. AGAGACAGTTTAAAACTAAATCAGAAGAAAAGTCTTATA 1305915 29 100.0 37 ............................. TTTAAAGCACCCTTAAAATCTGGTTGGGCATGTTCTC 1305981 29 100.0 37 ............................. TTGGTAGACAACCTGGTACTTGGCTTAAGATTGATAA 1306047 29 100.0 36 ............................. CATGTGATAGAGATAATATACAATATGATAGAGAAA 1306112 29 100.0 35 ............................. GCATAAAATACCTTCAAAAATAGCTTCTACTGACA 1306176 29 100.0 37 ............................. CGAAATAATGTTTTGTTTTCGATGGGTATATATACGG 1306242 29 100.0 35 ............................. TAGCTTTTGCGACTGGAAGATACGCAGATAATTTA 1306306 29 100.0 36 ............................. ATTGTAAGCTCTTTAATTTCTAAATTAGCTCCGATT 1306371 29 100.0 36 ............................. TTAAGTAGAGCAATGTATCATGGTTATGTGAAAAGT 1306436 29 100.0 36 ............................. CTAGTAAATTTTGCTAAAAGGCACTATTATTGTAGT 1306501 29 100.0 36 ............................. CAGTTGACACAATGAGTAAAAGCGAAGCAGAGCAAG 1306566 29 96.6 37 A............................ TTATGTTATAGGAGCAGGTTGCAAGAAGTATAAGCAA 1306632 29 100.0 37 ............................. CATAGATTTTGGAGATTTAAGGGAAGGCAATATGTGT 1306698 29 100.0 36 ............................. GGGTTTGCATCTTTATTAGATAATTTTATTAATAGA 1306763 29 100.0 36 ............................. TAAATATAGAATAAAGCATTTTAGTTTACAATGCAA 1306828 29 100.0 37 ............................. ACCTAAAAAATCAATGCAGCTTATCTTATATGCAATG 1306894 29 100.0 36 ............................. ATTAAGGAATAGTAATTACAGTGGACTGGAGTTAGT 1306959 29 100.0 36 ............................. ACGTTTCGCAAGGGATTTTTTAAAGCGAATGGATAA 1307024 29 82.8 0 ................A.CA...C....T | ========== ====== ====== ====== ============================= ======================================= ================== 33 29 99.4 36 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAAGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGAGAGGATTCAATCTATATTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGCTATGGTATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGACATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGTTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTACACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATGATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAGGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAGAAAGCACAATCAAAGCACATGGCTTTATAAGTAAAGAATACTGGCAAAATAACCATAATGCTGTTAAAAATGAGTATATACCTATATCAGATACATTTGTATATGATATTGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGTTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTGAAAAATATAAAAGTCTAAGTTTAGCAGTATACAAAGATAATAAAAAAGCAGTTATTTTTTATAATAAAAAAGGTTTTAATGTAGTAAAAGGGCAATTAAATGAAGACTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGAGTGTA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 2239618-2242216 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 2239618 30 100.0 36 .............................. ATGTTTAAGTCAGATGGCTCACCAAATCAAATGTTT 2239684 30 100.0 36 .............................. TTTATTGTAGCTGTTATAACTTCTTTATTTGTATTA 2239750 30 100.0 36 .............................. TGATTTATTAGAGGAAAATAGAGAATTAAATATTAA 2239816 30 100.0 36 .............................. TATTGCTCTAAATTTAGTAGACCAAGTTCAATTTCT 2239882 30 100.0 36 .............................. TTAAATGCTTTATAAAGTATTAATTCATTTTGTAAC 2239948 30 100.0 36 .............................. TATTAATCCTTCTATTGGAAAATATCGTCTTCAAGA 2240014 30 100.0 36 .............................. TATAGTTTTGTAGCTCTTTCAAGTTCATCTGCATTT 2240080 30 100.0 36 .............................. ATATATCTAAATGGATTATTATATCTAACTCCATCT 2240146 30 100.0 35 .............................. ATTTTATAATGGTAAAAAAGAGTTTTACATAGCTG 2240211 30 100.0 36 .............................. TTTTGAAGTTTAGTTATATCTGGGTCACCAGTCTGT 2240277 30 100.0 35 .............................. CAGCATCTAAACCTTCTCTTCTTGCTTCCTCTGAA 2240342 30 100.0 36 .............................. TTAAAATTCAATTTAGTAAATGAAGTTAATTCTGGA 2240408 30 100.0 36 .............................. TTTTCTTTTGCAGCACTTCCTAGAACATCTCCATCA 2240474 30 100.0 34 .............................. TCAAATCTAACTGATGTTCTTTTATTATCAAAAG 2240538 30 100.0 36 .............................. TCTTTAGCTTTTTCTATTTCAGCAATTATCTCTACT 2240604 30 100.0 36 .............................. GGATTATCCAATCTTTAATCTTATTACCATACCATT 2240670 30 100.0 36 .............................. TATCTCTTAAAGCACTATCTAATTCAACAATAGTTG 2240736 30 100.0 36 .............................. TATTGAACTTAGCATCTAATTTAGTATTTTTAGTAG 2240802 30 100.0 37 .............................. TAGAATAAAAATTACTTGCAGAATAAAAAATGTCTTC 2240869 30 100.0 36 .............................. TAGAAAAAAGTGTACATTGACAACTGAATATCCCCT 2240935 30 100.0 36 .............................. ACACTTATTTTGATTTTATTTATTTTAATTTTTTAT 2241001 30 100.0 36 .............................. TCCATCTACTTTTTTACTTTTAGCTTTTTCTTTAGT 2241067 30 100.0 36 .............................. AGTCTGAAGATGAGCGAATGTGCTATATCTGTAATA 2241133 30 100.0 37 .............................. TTAAATATAATAAATCGTAATGTACAAAAATAACTTA 2241200 30 100.0 36 .............................. TTTCTTGAGTTAATTGAACCCCCATTTTTAAGCTCC 2241266 30 100.0 36 .............................. TTTTCTTCTAGCTCTTTTTTCTTAGCCATTTTACCA 2241332 30 100.0 36 .............................. ATGTTTATACATGAGTTTAGTGATAGGTTCTTGGTC 2241398 30 100.0 36 .............................. AAGGCAAGTGATTTGCTATTTAGAATAGGTGTAAAC 2241464 30 100.0 35 .............................. ATTTCTTTTTGTGAAGTGTTAAGAGATTGCTCTTC 2241529 30 100.0 36 .............................. ACAGTAGCTATTCCAATTTCTTCTGCTTGTGGCATA 2241595 30 100.0 36 .............................. TCAAAGATGCCCCTCTAGCTGGTTTTTGGGTATCTA 2241661 30 100.0 36 .............................. TGTGTTGAGTCGTGATATTGACTTTTTCGGAAACGG 2241727 30 100.0 35 .............................. TTGTAGTCCTTCCATTTCCATCACACAAAAAGCAT 2241792 30 100.0 35 .............................. TCTATGTTATGTACATGATTACCTTGTTTGAGTAG 2241857 30 100.0 36 .............................. TAAGAGTCTCTTTGTATATCAATTTCTCTAGTAGAT 2241923 30 100.0 36 .............................. TAAATTATTAGTTTTAAAATTTAAAGGGGGAAAAAA 2241989 30 100.0 36 .............................. GCTAACTTAATTACTTGTTCCACATTTGCTAATACC 2242055 30 100.0 36 .............................. AAATATTCAATATAGTTTTTAAATACACTTTCCATT 2242121 30 100.0 36 .............................. TCATTAGTACTTGTTATTCCAGTAAAAGCTACTTTG 2242187 30 93.3 0 ...............A........C..... | ========== ====== ====== ====== ============================== ===================================== ================== 40 30 99.8 36 GTTAAACAGTAACATGAGATGTATTTAAAT # Left flank : CAGATTTAAAAGAGTATACAATCTTTTTAAATACTATAGTTAAAGATGAATCTGGAAATATGATTGTAGGAAGTGATGTATGGTATGAATATATATCACTACTAAAAAATGATAATGTTGAGTATTCTGAAAAGAGGGTGAAAATGTCTGAAATTATGGAAAAACTAGATTATTTTACGTATAAAGTTCAGAAATTTGATAATTCATTTAATGATTTAGTTGGAGATATTTTTTATATTGATGATGGAAGTAAGTATTTTACAGAGGGAAAGTTTGATAGAAGTAAATTTAATCAAAATGAATTTCTATAATGTATTTAGATTATATAGAGAATATTTATCCCAAGTTAATTAATTAGAATTAGTTTAAAGCTATTGAAATATAGATATTTTATATCTTATATATATTTTCTAGGATTAGCTGGGATAAAAAATCTGTATATTAGTGTTTTCAGTGTATTTAAGGGAATTATATTTTTAAGAAGTACTGATTTTAAAGTG # Right flank : TTACTCTATCATAAAATTTTAATATATTAAACAAACTAATATGTGATATACTTATGTATAAATAACAAAATAAATAGGTGATGTTATGAAAATTACAGGAACTTTGATAAATTACTATTTCCATTGTAAAAGACAATGCTGGTTGCTTGGTAATAGAATAAATTTGGAAGAAAATAGTGAAGATGTAAAAATAGGTAGACTTCTTCATGAACTAAAAGAAGAAAAATCAAAATATAAAGAAATTGCAATTGAAAATATAAAAATAGACAAATTAACAAGAGAATATTTAGTAGAGGTTAAAAAGTCTGATGCTGATATAGAAGCTGTTAAGTGGCAAGTTCTTTTATATTTAAAAAAGTTAAAAGAAAAGGGAATTGTAAGAAAAGGGAAAATTGAATTTATAGAAAAAAATAAAACTAATAAAAAAATAGTCTTTGTAGATTTGAGTGAAGTATCTGAAGAACAGCTTATATCTATAGAAAGAGAAATTGTTAATTTAA # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTAAACAGTAACATGAGATGTATTTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-85.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 3 2352318-2353291 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================= ================== 2352318 29 100.0 37 ............................. TTAAGCTTAAAGATTATGGTTTTCAAGTTTTAGTTAA 2352384 29 100.0 36 ............................. TTAAGAAATGCAGATAATAGGATACCTTTCAACTGG 2352449 29 100.0 38 ............................. TGGAAACTAATATTTATATAAAACTTGTAAATATACAG 2352516 29 100.0 35 ............................. CGAGAAATTGAGCTAATTTTACTATTATCAGCATT 2352580 29 100.0 36 ............................. AAAGGTGTGAAAAGAGATGAGTTAAATCAAAGTGAA 2352645 29 100.0 36 ............................. GAAACGAAGCTAGTTATTGTGATTATACAAGTTTCC 2352710 29 100.0 36 ............................. TTAATAGCACATCTTCGCTTTCAAGTTTCTCTATCA 2352775 29 100.0 37 ............................. TATATATTGGATGTCAATGTCAAGAATACAAAATTTA 2352841 29 100.0 37 ............................. ATAGGAAAATAGAGATAGGTTCACAATCTAATGATAG 2352907 29 100.0 38 ............................. ATTTTTTCTTTTAGTTTTTTAGGAACTGGTAATCCACA 2352974 29 100.0 36 ............................. TTCTGAATCATATGAAAACAAAATCTTATTTGTATT 2353039 29 96.6 35 ...........................G. GAAATTATTAATGTTATTTCTACTCTTGCAGTTGC 2353103 29 93.1 46 .......................A....G CATAGTCTATTGAACATTTATTAAGAGATAACTTTCGTTTTATATA 2353178 29 79.3 55 ...........G...TA.T.A..T..... GTTTCACTATTGGACAACGGAAGTTTTTTCAGTGAGTAAAGATTGAATCACTTTA 2353262 29 72.4 0 TA.....C....T..T...A...A...T. | A [2353281] ========== ====== ====== ====== ============================= ======================================================= ================== 15 29 96.1 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : GACAGTCAGTTTTTTGTTTATCTGAATAATATTTTACTTAAATTATTAGAGGTCTTTTTGTACATTTCTTCTAAAACATAAGAATATATATTCATAGTTAGTTTTAAATCTGTATGACAAAATCTTTCAGAAACTATTTTCATATTAGTTCCTACCAAATGTAACAAACTAGCACCTGTATATCTTAAATTATGTATTTTCATTTGTCATTAGGTATTTTTAATACATTATATAACTATGATTTTATTATTTGAAATCTAAGTTATAAATACTATTGATGATAGAGTAATTGTATACAAAAATATATAATATATTTATGATATAATAAAGATATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAAATATGTTTAAGCATTGAAATGTAAGGTATTGATAGTGATTGATAAACATTATCATTTGCACTACTGTTCGCTCACTGCAAATTTAAGAGAATTGCATATGTGTGAGTATTGGAAATTCTACGTTTATTTTAGG # Right flank : TATTATCTTATTTCTATTTGTAACTTTTTTAAGTATGTATTGTCCAGTTGTAATTTGTTTTTATTATTTTAAACTTTCAATTCCAAAATTATCTAATATAATTGAATTAACTTACTTTCTTTTTTTATTTTACCTCCTTGTTCTCTAATTAATTTATACATTTTATTTATATTTAAGAATACATACTCTAATTTGATTACATAAAATAAAATGTTTTTCTACTATAAATTAAACTCTTTAAAAAATATGACTCAACTACTTTAATTTTTATTCTAATGATACATTAATTCTAGACATAATAAAACTCTCCTAGCTAGATGATTTTACATGTTTTAACTATCTCCTAAAAAAGTATAGTTTGATAAAAAGAGCATTTTTATATAAGCACCATACTTTTATTGTGGAAGATAATTATTTTATGAGGTATTGAAAACTTACATAAAATCTGTGGATAAAAACTCATACTTTCATTTTACTGACATACATCTAAACATAATAAT # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:-0.04, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-80.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 2400080-2403078 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 2400080 29 100.0 38 ............................. TAGACTGATATTCATCCATACTGATGATTCCTAAAGAA 2400147 29 100.0 35 ............................. AGGGTTGAGTTCTGGCGTATTAAGAGGTGAGGAGC 2400211 29 100.0 37 ............................. TGGAGAAGGTCTTGGATTAGCACCAATAGGTCATAGA 2400277 29 100.0 36 ............................. AGTGAAAGCAAGGCTATTCCTAATTCTTGGAGTGGA 2400342 29 100.0 38 ............................. AAATAAGTTTTGAAGCAGAATTTACACACAATAAACTA 2400409 29 100.0 37 ............................. AAATAAAAGAATTAGGATTTACTCAACAATCAATTAA 2400475 29 100.0 37 ............................. ACCAATTTTTGTATGCTATATCACAATCTTTACTCTC 2400541 29 100.0 37 ............................. TCTTCCACTTTAGGTTTATATGCTGACCTATACTTTG 2400607 29 100.0 37 ............................. CTGCATTATCTACAAGTGGGTGGTTTTTTAAATTAGT 2400673 29 100.0 36 ............................. AAGAAAGACAAACATGTTCAAAGTCATGTTCAAACA 2400738 29 100.0 37 ............................. CGGCAAATAAGAGCAGTATATTCATCAGATTTAAATA 2400804 29 100.0 37 ............................. GAGGTTGATGCTTATAGATTAAGTAAATTAGCTACTG 2400870 29 100.0 37 ............................. GTTAGTGTATGTCCTGGTACTAACGCTACCTTCATTA 2400936 29 100.0 37 ............................. TCATTATAACCCCAACCAACTACAGTTGCAGGGATTT 2401002 29 100.0 39 ............................. TATAGCTAAATCTATTGTGGATTTAATTATTTCTGCCTC 2401070 29 100.0 37 ............................. AACTCTTTTGCTATTCGTTTCACTACATTATTATCAT 2401136 29 100.0 37 ............................. AAAAGTAATGAGAGTTTAGAAGATAGAAGGTTTAGGA 2401202 29 100.0 38 ............................. TTATTTTCTCTGATAATTCTACTAAGGTATTATTTAAA 2401269 29 100.0 35 ............................. ATATGACAGCACAAGGAACACCTACAGCACAAGCA 2401333 29 100.0 36 ............................. AAAAACTAAAACAGTCTATGGCTATATGAAAATCTC 2401398 29 100.0 37 ............................. AAGAAAATAAGACGTTCAAATCAAAAAAGACGAAGTA 2401464 29 100.0 37 ............................. TCTATTCCAACATAAAGATACAAAGTAGTTTCTTTTT 2401530 29 100.0 38 ............................. AAACAAATCATCACACAAGCAATTATTATGCTTACTAA 2401597 29 100.0 36 ............................. GTCGTAAAACTTAAAGATGAAACAAAAGGAATGATT 2401662 29 100.0 37 ............................. AGATTCGACGGAGAACTTTTATCTAATAAAGAAAAAC 2401728 29 100.0 37 ............................. ATCACCTGGTGATATACCCCTCTATCATCTCCTGCTA 2401794 29 100.0 37 ............................. TGGTTTGTTGCAACATATGTGTTCCTTCAACATATCC 2401860 29 100.0 38 ............................. GAATCTGGAGCAGGTTTATAAGTTTCTGGATAGCTAGA 2401927 29 100.0 36 ............................. AAAAAATATAAAAGAGCTAAGCACATGAAGGATAAT 2401992 29 100.0 38 ............................. TATGTTAAATTTGTTGATGAATTATATCCCAATTTTTA 2402059 29 100.0 36 ............................. CACCTCTCACTACTATAGAATCTTTATCAACGCTAA 2402124 29 100.0 37 ............................. GGAAGTATAATTTTTACTTTATCTCCATACTCAAAAA 2402190 29 100.0 37 ............................. TGTATTGAGGGGTCGAAAATAAGTGTGTTCAAACTTA 2402256 29 100.0 37 ............................. TTTGTAAATGTAACAGTTTTATCTAACATTTTACCGC 2402322 29 100.0 36 ............................. GTATTTAGATATTGCAAGTAAATTACCTTCGGTATC 2402387 29 100.0 38 ............................. TTTCATCTAATACCTCCTTGTTTTATCAAGAGGGTTAA 2402454 29 100.0 38 ............................. TTTCATCTAATACCTCCTTGTTTTATCAAGAGGGTTAA 2402521 29 100.0 36 ............................. ATTAATTCAGAACTTGCACAGTTGTATATAGAACTT 2402586 29 100.0 38 ............................. ATATTCATATACTACATATTCTTTTCCTTCATCATTAA 2402653 29 100.0 37 ............................. AGGTCTAAAATTTGTATTTAGACATACTAAGTTATTT 2402719 29 100.0 37 ............................. TCACAAAAACAAGGAATACTTAAGTTAGCATCAATGA 2402785 29 100.0 37 ............................. TAGAGTATTGTTCTACAATTATATTTCCAACTGAACT 2402851 29 100.0 37 ............................. TGAAGTTTTCTTTTAAATTATCATCCTGTATAGCCTT 2402917 29 100.0 37 ............................. ATACAGGAACAGGAGTCGGAACAGAAAAAAACGCCTC 2402983 29 96.6 37 A............................ GTTGTATTACCTCTGTAATTATTTTTTCCAAAATTAC 2403049 29 82.8 0 .C.............A......AT.T... | G [2403070] ========== ====== ====== ====== ============================= ======================================= ================== 46 29 99.6 37 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : CTACAATTTATAGAGTGGAGTTCATACAAAAGATAATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTACAAGGTATATTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAGAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATTTTTATGATATAATAAAGATATAGAAATTTTGCAGTGTTCGATTTTTTGAATAAAATAGGGCTTAAGCATTGAAATATAAGGCGTTGAAGATGTATGATAAGTGTTATCATTTGCACCACTGCTCGCTCACTGCAAATTTTAGAGTGTTGCATATGTGTAAGTGTTGGAAATGCTAAGTTTATTTTGGG # Right flank : GAAGTTACAATGAGTACAAGAATGTTTCTATTTATTGTAACTTTTTTTATTACAAACTTAAATTTATAGTATATTATAAAAATCATTATAAAAAGATGATTTAATAAAAAAATATAATTAAAAAAACGATTAATAATCTATAAAAATGGAAAAAACATCCAATATCCTACAAAAATAGATTTTTTTATTACAATTACAAGTTTTTATTGCATCTATTTAGCAAAAGTATTATTATGCAAGTAAGATAATTATCAAAGACAATTCTGAATAGTCTGATTTAAAAGATACAATTAAAGGATATAAATAGGAATAATTTATAAATATTACAGAAGATTTATAACTAAAATTACGAACGTAAGTTTGTTATATGGGGTAGTTGTGTGGATGAATCAAATAAATTAATATTAGAATTGAATAATATTTTCTGTGAATTAGAGAGTATTAATAAATATAAGTTTAATGAATATAAAGAAATTGTTAAAAACTTACACAACAAAAAA # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [66.7-78.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 5 2729591-2728442 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2729590 29 100.0 36 ............................. CTTGTAGATAATGCAGAAGAAGAAGAAAAACAGATT 2729525 29 100.0 37 ............................. GATGCTACCTTATTTTTATCTAATCCCCAAATAAACT 2729459 29 100.0 37 ............................. TTATTTCTTAACCAGTCAAATAATCTATTTTGTCCTG 2729393 29 100.0 36 ............................. ATCATAGTTTATTAACACAGGAAACGAGGTTAGTTC 2729328 29 100.0 37 ............................. AACTCTTTTAAAAAAGAATATACGATTTTCAGAGAAG 2729262 29 100.0 37 ............................. TATTAATTGCTTATCTATTAATTCTTTTAATTTTTCA 2729196 29 100.0 36 ............................. TGAAGGGTTATAAAAAAAATAATAGCGAAAAGGGCG 2729131 29 100.0 37 ............................. CACGAAAAAATCAGAAGGGGAGGGGGGTTATTTAAAA 2729065 29 100.0 37 ............................. TTAAAACTTGAATTATTTCAAAAAGCTAAACATCAAG 2728999 29 100.0 37 ............................. TTTAATTGCCCTTCATAGAATATTATTTCACCTTCTT 2728933 29 100.0 37 ............................. TATGAGAAAGTTGAATTTAAAGGCGAAATGAACATGG 2728867 29 100.0 37 ............................. TCTTTATATTGATATCCAAGAATAAGCGCACGTTCTT 2728801 29 100.0 38 ............................. TTGCTTAGCGCAATAACTTTTGAAAATACTACAGGAGT 2728734 29 100.0 37 ............................. TAAGATGTCCAAATGCTAAGAGAGAATTCTTAGGATA 2728668 29 100.0 37 ............................. AAAAGAAGTTTTGAAAGTAAATGTGTAAATAATAATA 2728602 29 100.0 38 ............................. GAAGTCAACAATTTGGCTATTGGTTAAGTACAACTAGC 2728535 29 100.0 36 ............................. AAAGAAAATTGGGTTTTTGATTAAGAACTTGCGAAT 2728470 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ACTATTATTATATAACTAACATCTAAGTGACATTTAAGAAAAATATGAGATTACTGATATTTTACTGATATAAAACTGAATGTTATTTAAAGAGAGCCTTGATTATATTTTTAGAAGCTTTTTATGCATATTATCTAAAATATGAGAATATCTATTCATAGTTATTTTTATATCAGTATGACCTAATTTTTTAGAGAGAATTTTTATATTAAATCCAGTTAGAAGAAGACTTATTAGAATATCCAATGTAGTAAGCACTAGCAGATATTCTTAAATTGATAAATTACTCCATTTTAATTTTATAGGTTAAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGCGTTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAAAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACTCCAATAATTTATATAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAGTAATTACCAGATAACATTGACTTTAGTCTTATTGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATAGAATAAAACTTAATGACAAGATACTAGATATAAAAATAATTACCTTATAAATAGATTGAAATTTGTGAATATTCATACTATAATTTAGATATAAGGAGATGCTCTTATAAACTTAAAGGGTTTGTACTACTTGTACTATCAGTATTGATAATATTAAAGTATATATACCATTTGTATTTGTTGAAAAAGATTTTAATAGTAATACAATGTTAAACAACACAAATATCAAAATTTAATATTGATAGAGGTATAAACATTATAAAAATAATTGAAAATAAAAATTAAGAAATATTTAATCCAACTACAATATAAATTAGAACTA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [76.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 6 3212624-3211997 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP068557.1 Clostridioides difficile strain CD4401 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3212623 29 100.0 38 ............................. CTCAAAATTAAATAGTTGGCTATGGTTAAGGGATTGCC 3212556 29 100.0 38 ............................. ATAATAGCAGATATGATGTTTAATAACGGAAGTATAAG 3212489 29 100.0 38 ............................. CTGAATGAACCTAAGGTAGTTGAACAGATTGAAAAGAC 3212422 29 100.0 38 ............................. TATGTCAGGACTTCTTAAACCATATTCAGCATACACTC 3212355 29 100.0 37 ............................. AAATTTAATATTGCTGGAAAAGGAGAAATGGATATTG 3212289 29 100.0 37 ............................. AATGCTGAACTTAAAGTAATGATGCTATTTTGGGACA 3212223 29 96.6 37 ............T................ AAATTTGCAAGGCTAAATTGCCCCTTAATTAATGGTG 3212157 29 100.0 37 ............................. AGTTTTTCTATATATTCAGATATTTCACTTTTATCTT 3212091 29 100.0 37 ............................. GAAATATGTATAGAAGCATTGAAACAAGATAAATATT 3212025 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 99.7 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : AGTTCATACAAACAAAGGATTATCCTCCCCATTTTAAGAAGGGAGGTGATTATGTATGGATAATTTTTTACTTAGTATATTAGCCAGTATTCTGGCTAGCTATATAGTTTACTTAATAAGTAAGTTATTTAGAAAACGTAAAAAACCACTCAAAGCTGGCACTAAGAGTGGTTGGGAACTTGATTTTAAAATAAAGTTCCATAAATTCAAATAACATCGTTTATGATGAACTCCACTCTACTGCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATATTTATAATATAATAAAATTATAGAAGTTTTGCAGTGAGCGAAATTTGTGATAAAATATGGCTTAACAATTGGAATATAATGCATTGAAGATGTGTGATAAGTATTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATAGATGTAAGTATTGGAAATACTCAATTTGTTTTGGG # Right flank : TTTATATTCCTCACACATATAATACAATTAATTCAGTTTTAATTGTCATTATGCTCAATATTTAGTTTTTCTGTATCTTATAAACCAAGAATATAATTGATAGAGACACCAAAAATTTTAGCAAATATTATTAACTCATCATCTCTTATTGGTCTTTCATCAGACTCTATTATATTCATAACACTTGTATTTATATTTGTTTTTTCAAACAATTATTTTTGTGACCTATTCATATTTTCCCTAATATATTTAATCACTTGACTTATGTTCATACATGATCACCTCGAAAAATTTCTATTGTAGAGTTGTAAAAAATTTAGCTTTAAAATATAGAATATCAAGTGATTTTAAGTAAGAATTGTAACAATTAAATAAGTATAAGACAAGTTTATGAGTTCATATTTTATAACAAGGGGTGATGTTATGAAAATACTACAACAATTTAAACCATACAAATATGATAAAGAAAAAAATATAGAATATGATGAAAAAATTATAGC # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [78.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //