Array 1 189041-189667 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000002.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 189041 29 100.0 38 ............................. CTCAAAATTAAATAGTTGGCTATGGTTAAGGGATTGCC 189108 29 100.0 38 ............................. ATAATAGCAGATATGATGTTTAATAACGGAAGTATAAG 189175 29 100.0 38 ............................. CTGAATGAACCTAAGGTAGTTGAACAGATTGAAAAGAC 189242 29 100.0 38 ............................. TATGTCAGGACTTCTTAAACCATATTCAGCATACACTC 189309 29 100.0 37 ............................. AAATTTAATATTGCTGGAAAAGGAGAAATGGATATTG 189375 29 100.0 37 ............................. AATGCTGAACTTAAAGTAATGATGCTATTTTGGGACA 189441 29 96.6 37 ............T................ AAATTTGCAAGGCTAAATTGCCCCTTAATTAATGGTG 189507 29 100.0 37 ............................. AGTTTTTCTATATATTCAGATATTTCACTTTTATCTT 189573 29 100.0 37 ............................. GAAATATGTATAGAAGCATTGAAACAAGATAAATATT 189639 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 99.7 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : AGTTCATACAAACAAAGGATTATCCTCCCCATTTTAAGAAGGGAGGTGATTATGTATGGATAATTTTTTACTTAGTATATTAGCCAGTATTCTGGCTAGCTATATAGTTTACTTAATAAGTAAGTTATTTAGAAAACGTAAAAAACCACTCAAAGCTGGCACTAAGAGTGGTTGGGAACTTGATTTTAAAATAAAGTTCCATAAATTCAAATAACATCGTTTATGATGAACTCCACTCTACTGCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATATTTATAATATAATAAAATTATAGAAGTTTTGCAGTGAGCGAAATTTGTGATAAAATATGGCTTAACAATTGGAATATAATGCATTGAAGATGTGTGATAAGTATTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATAGATGTAAGTATTGGAAATACTCAATTTGTTTTGGG # Right flank : GTTTATATTCCTCACACATATAATACAATTAATTCAGTTTTAATTGTCATTATGCTCAATATTTAGTTTTTCTGTATCTTATAAACCAAGAATATAATTGATAGAGACACCAAAAATTTTAGCAAATATTATTAACTCATCATCTCTTATTGGTCTTTCATCAGACTCTATTATATTCATAACACTTGTATTTATATTTGTTTTTTCAAACAATTATTTTTGTGACCTATTCATATTTTCCCTAATATATTTAATCACTTGACTTATGTTCATACATGATCACCTCGAAAAATTTCTATTGTAGAGTTGTAAAAAATTTAGCTTTAAAATATAGAATATCAAGTGATTTTAAGTAAGAATTGTAACAATTAAATAAGTATAAGACAAGTTTATGAGTTCATATTTTATAACAAGGGGTGATGTTATGAAAATACTACAACAATTTAAACCATACAAATATGATAAAGAAAAAAATATAGAATATGATGAAAAAATTATAG # 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: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-78.3]%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 1 45811-46784 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000001.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================= ================== 45811 29 100.0 37 ............................. TTAAGCTTAAAGATTATGGTTTTCAAGTTTTAGTTAA 45877 29 100.0 36 ............................. TTAAGAAATGCAGATAATAGGATACCTTTCAACTGG 45942 29 100.0 38 ............................. TGGAAACTAATATTTATATAAAACTTGTAAATATACAG 46009 29 100.0 35 ............................. CGAGAAATTGAGCTAATTTTACTATTATCAGCATT 46073 29 100.0 36 ............................. AAAGGTGTGAAAAGAGATGAGTTAAATCAAAGTGAA 46138 29 100.0 36 ............................. GAAACGAAGCTAGTTATTGTGATTATACAAGTTTCC 46203 29 100.0 36 ............................. TTAATAGCACATCTTCGCTTTCAAGTTTCTCTATCA 46268 29 100.0 37 ............................. TATATATTGGATGTCAATGTCAAGAATACAAAATTTA 46334 29 100.0 37 ............................. ATAGGAAAATAGAGATAGGTTCACAATCTAATGATAG 46400 29 100.0 38 ............................. ATTTTTTCTTTTAGTTTTTTAGGAACTGGTAATCCACA 46467 29 100.0 36 ............................. TTCTGAATCATATGAAAACAAAATCTTATTTGTATT 46532 29 96.6 35 ...........................G. GAAATTATTAATGTTATTTCTACTCTTGCAGTTGC 46596 29 93.1 46 .......................A....G CATAGTCTATTGAACATTTATTAAGAGATAACTTTCGTTTTATATA 46671 29 79.3 55 ...........G...TA.T.A..T..... GTTTCACTATTGGACAACGGAAGTTTTTTCAGTGAGTAAAGATTGAATCACTTTA 46755 29 72.4 0 TA.....C....T..T...A...A...T. | A [46774] ========== ====== ====== ====== ============================= ======================================================= ================== 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 2 93573-96504 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000001.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 93573 29 100.0 38 ............................. TAGACTGATATTCATCCATACTGATGATTCCTAAAGAA 93640 29 100.0 35 ............................. AGGGTTGAGTTCTGGCGTATTAAGAGGTGAGGAGC 93704 29 100.0 37 ............................. TGGAGAAGGTCTTGGATTAGCACCAATAGGTCATAGA 93770 29 100.0 36 ............................. AGTGAAAGCAAGGCTATTCCTAATTCTTGGAGTGGA 93835 29 100.0 38 ............................. AAATAAGTTTTGAAGCAGAATTTACACACAATAAACTA 93902 29 100.0 37 ............................. AAATAAAAGAATTAGGATTTACTCAACAATCAATTAA 93968 29 100.0 37 ............................. ACCAATTTTTGTATGCTATATCACAATCTTTACTCTC 94034 29 100.0 37 ............................. TCTTCCACTTTAGGTTTATATGCTGACCTATACTTTG 94100 29 100.0 37 ............................. CTGCATTATCTACAAGTGGGTGGTTTTTTAAATTAGT 94166 29 100.0 36 ............................. AAGAAAGACAAACATGTTCAAAGTCATGTTCAAACA 94231 29 100.0 37 ............................. CGGCAAATAAGAGCAGTATATTCATCAGATTTAAATA 94297 29 100.0 37 ............................. GAGGTTGATGCTTATAGATTAAGTAAATTAGCTACTG 94363 29 100.0 37 ............................. GTTAGTGTATGTCCTGGTACTAACGCTACCTTCATTA 94429 29 100.0 37 ............................. TCATTATAACCCCAACCAACTACAGTTGCAGGGATTT 94495 29 100.0 39 ............................. TATAGCTAAATCTATTGTGGATTTAATTATTTCTGCCTC 94563 29 100.0 37 ............................. AACTCTTTTGCTATTCGTTTCACTACATTATTATCAT 94629 29 100.0 37 ............................. AAAAGTAATGAGAGTTTAGAAGATAGAAGGTTTAGGA 94695 29 100.0 38 ............................. TTATTTTCTCTGATAATTCTACTAAGGTATTATTTAAA 94762 29 100.0 35 ............................. ATATGACAGCACAAGGAACACCTACAGCACAAGCA 94826 29 100.0 36 ............................. AAAAACTAAAACAGTCTATGGCTATATGAAAATCTC 94891 29 100.0 37 ............................. AAGAAAATAAGACGTTCAAATCAAAAAAGACGAAGTA 94957 29 100.0 37 ............................. TCTATTCCAACATAAAGATACAAAGTAGTTTCTTTTT 95023 29 100.0 38 ............................. AAACAAATCATCACACAAGCAATTATTATGCTTACTAA 95090 29 100.0 36 ............................. GTCGTAAAACTTAAAGATGAAACAAAAGGAATGATT 95155 29 100.0 37 ............................. AGATTCGACGGAGAACTTTTATCTAATAAAGAAAAAC 95221 29 100.0 37 ............................. ATCACCTGGTGATATACCCCTCTATCATCTCCTGCTA 95287 29 100.0 37 ............................. TGGTTTGTTGCAACATATGTGTTCCTTCAACATATCC 95353 29 100.0 38 ............................. GAATCTGGAGCAGGTTTATAAGTTTCTGGATAGCTAGA 95420 29 100.0 36 ............................. AAAAAATATAAAAGAGCTAAGCACATGAAGGATAAT 95485 29 100.0 38 ............................. TATGTTAAATTTGTTGATGAATTATATCCCAATTTTTA 95552 29 100.0 36 ............................. CACCTCTCACTACTATAGAATCTTTATCAACGCTAA 95617 29 100.0 37 ............................. GGAAGTATAATTTTTACTTTATCTCCATACTCAAAAA 95683 29 100.0 37 ............................. TGTATTGAGGGGTCGAAAATAAGTGTGTTCAAACTTA 95749 29 100.0 37 ............................. TTTGTAAATGTAACAGTTTTATCTAACATTTTACCGC 95815 29 100.0 36 ............................. GTATTTAGATATTGCAAGTAAATTACCTTCGGTATC 95880 29 100.0 38 ............................. TTTCATCTAATACCTCCTTGTTTTATCAAGAGGGTTAA 95947 29 100.0 36 ............................. ATTAATTCAGAACTTGCACAGTTGTATATAGAACTT 96012 29 100.0 38 ............................. ATATTCATATACTACATATTCTTTTCCTTCATCATTAA 96079 29 100.0 37 ............................. AGGTCTAAAATTTGTATTTAGACATACTAAGTTATTT 96145 29 100.0 37 ............................. TCACAAAAACAAGGAATACTTAAGTTAGCATCAATGA 96211 29 100.0 37 ............................. TAGAGTATTGTTCTACAATTATATTTCCAACTGAACT 96277 29 100.0 37 ............................. TGAAGTTTTCTTTTAAATTATCATCCTGTATAGCCTT 96343 29 100.0 37 ............................. ATACAGGAACAGGAGTCGGAACAGAAAAAAACGCCTC 96409 29 96.6 37 A............................ GTTGTATTACCTCTGTAATTATTTTTTCCAAAATTAC 96475 29 82.8 0 .C.............A......AT.T... | G [96496] ========== ====== ====== ====== ============================= ======================================= ================== 45 29 99.5 37 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : CTACAATTTATAGAGTGGAGTTCATACAAAAGATAATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTACAAGGTATATTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAGAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATTTTTATGATATAATAAAGATATAGAAATTTTGCAGTGTTCGATTTTTTGAATAAAATAGGGCTTAAGCATTGAAATATAAGGCGTTGAAGATGTATGATAAGTGTTATCATTTGCACCACTGCTCGCTCACTGCAAATTTTAGAGTGTTGCATATGTGTAAGTGTTGGAAATGCTAAGTTTATTTTGGG # Right flank : GAAGTTACAATGAGTACAAGAATGTTTCTATTTATTGTAACTTTTTTTATTACAAACTTAAATTTATAGTATATTATAAAAATCATTATAAAAAGATGATTTAATAAAAAAATATAATTAAAAAAACGATTAATAATCTATAAAAATGGAAAAAACATCCAATATCCTACAAAAATAGATTTTTTTATTACAATTACAAGTTTTTATTGCATCTATTTAGCAAAAGTATTATTATGCAAGTAAGATAATTATCAAAGACAATTCTGAATAGTCTGATTTAAAAGATACAATTAAAGGATATAAATAGGAATAATTTATAAATATTACAGAAGATTTATAACTAAAATTACGAACGTAAGTTTGTTATATGGGGTAGTTGTGTGGATGAATCAAATAAATTAATATTAGAATTGAATAATATTTTCTGTGAATTAGAGAGTATTAATAAATATAAGTTTAATGAATATAAAGAAATTGTTAAAAACTTACACAACAAAAAA # 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 : 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 1 1584-2732 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000018.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1584 29 100.0 36 ............................. CTTGTAGATAATGCAGAAGAAGAAGAAAAACAGATT 1649 29 100.0 37 ............................. GATGCTACCTTATTTTTATCTAATCCCCAAATAAACT 1715 29 100.0 37 ............................. TTATTTCTTAACCAGTCAAATAATCTATTTTGTCCTG 1781 29 100.0 36 ............................. ATCATAGTTTATTAACACAGGAAACGAGGTTAGTTC 1846 29 100.0 37 ............................. AACTCTTTTAAAAAAGAATATACGATTTTCAGAGAAG 1912 29 100.0 37 ............................. TATTAATTGCTTATCTATTAATTCTTTTAATTTTTCA 1978 29 100.0 36 ............................. TGAAGGGTTATAAAAAAAATAATAGCGAAAAGGGCG 2043 29 100.0 37 ............................. CACGAAAAAATCAGAAGGGGAGGGGGGTTATTTAAAA 2109 29 100.0 37 ............................. TTAAAACTTGAATTATTTCAAAAAGCTAAACATCAAG 2175 29 100.0 37 ............................. TTTAATTGCCCTTCATAGAATATTATTTCACCTTCTT 2241 29 100.0 37 ............................. TATGAGAAAGTTGAATTTAAAGGCGAAATGAACATGG 2307 29 100.0 37 ............................. TCTTTATATTGATATCCAAGAATAAGCGCACGTTCTT 2373 29 100.0 38 ............................. TTGCTTAGCGCAATAACTTTTGAAAATACTACAGGAGT 2440 29 100.0 37 ............................. TAAGATGTCCAAATGCTAAGAGAGAATTCTTAGGATA 2506 29 100.0 37 ............................. AAAAGAAGTTTTGAAAGTAAATGTGTAAATAATAATA 2572 29 100.0 38 ............................. GAAGTCAACAATTTGGCTATTGGTTAAGTACAACTAGC 2639 29 100.0 36 ............................. AAAGAAAATTGGGTTTTTGATTAAGAACTTGCGAAT 2704 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ACTATTATTATATAACTAACATCTAAGTGACATTTAAGAAAAATATGAGATTACTGATATTTTACTGATATAAAACTGAATGTTATTTAAAGAGAGCCTTGATTATATTTTTAGAAGCTTTTTATGCATATTATCTAAAATATGAGAATATCTATTCATAGTTATTTTTATATCAGTATGACCTAATTTTTTAGAGAGAATTTTTATATTAAATCCAGTTAGAAGAAGACTTATTAGAATATCCAATGTAGTAAGCACTAGCAGATATTCTTAAATTGATAAATTACTCCATTTTAATTTTATAGGTTAAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGCGTTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAAAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACTCCAATAATTTATATAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAGTAATTACCAGATAACATTGACTTTAGTCTTATTGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATAGAATAAAACTTAATGACAAGATACTAGATATAAAAATAATTACCTTATAAATAGATTGAAATTTGTGAATATTCATACTATAATTTAGATATAAGGAGATGCTCTTATAAACTTAAAGGGTTTGTACTACTTGTACTATCAGTATTGATAATATTAAAGTATATATACCATTTGTATTTGTTGAAAAAGATTTTAATAGTAATACAATGTTAAACAACACAAATATCAAAATTTAATATTGATAGAGGTATAAACATTATAAAAATAATTGAAAATAAAAATTAAGAAATATTTAATCCAACTACAATATAAATTAGAACT # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [71.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 19393-21449 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000006.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 19393 29 100.0 39 ............................. CAATATATTCTAGCAGGAGCAGATTTAGGAGCTTTACAA 19461 29 100.0 35 ............................. ATTCTTTATACAGAGAAACACGATACTATTTACAG 19525 29 100.0 36 ............................. ATATCTTTGTACTCTTGATTTTCCAGCTTTGATATA 19590 29 100.0 36 ............................. AATTGCATAATATTAGAGAGTTTAATACCATCAAGT 19655 29 100.0 37 ............................. GATGGTAAAATGGGAGATACTTTCTTTGGATTAACAG 19721 29 100.0 34 ............................. TTGCTTATACTTACAACTTTTTCTGCTGTAGCAT 19784 29 100.0 36 ............................. AAAACTGTTTCTACTTTTTTAGTCCCAAGTAATTCC 19849 29 100.0 37 ............................. CGCATTTTTGCTTTTATATTGCTTCTTCTATCTTCTA 19915 29 100.0 38 ............................. TCTAAAATATCCTCACAACTCCTGTAATTGTATTTTCT 19982 29 100.0 37 ............................. TGGTTTACTAAGAAAATAACGGATTTTTAAGAGAAAA 20048 29 100.0 37 ............................. TTTGATGAAAAAGAAGAATATAAGAGGGATGTGGCAA 20114 29 100.0 36 ............................. TAACTCCAAACTCCGTAAGTCTTGCCATTTCTCCAA 20179 29 100.0 36 ............................. GAGTATCAAGAGACCAGGGAAAGGCAGGTAAAGCAG 20244 29 100.0 36 ............................. AATGGTAAAATGAAGGCATAATAAATTTCAATATAG 20309 29 100.0 39 ............................. AGAGACAGTTTAAAACTAAATCAGAAGAAAAGTCTTATA 20377 29 100.0 37 ............................. TTTAAAGCACCCTTAAAATCTGGTTGGGCATGTTCTC 20443 29 100.0 37 ............................. TTGGTAGACAACCTGGTACTTGGCTTAAGATTGATAA 20509 29 100.0 36 ............................. CATGTGATAGAGATAATATACAATATGATAGAGAAA 20574 29 100.0 35 ............................. GCATAAAATACCTTCAAAAATAGCTTCTACTGACA 20638 29 100.0 37 ............................. CGAAATAATGTTTTGTTTTCGATGGGTATATATACGG 20704 29 100.0 35 ............................. TAGCTTTTGCGACTGGAAGATACGCAGATAATTTA 20768 29 100.0 36 ............................. ATTGTAAGCTCTTTAATTTCTAAATTAGCTCCGATT 20833 29 100.0 36 ............................. TTAAGTAGAGCAATGTATCATGGTTATGTGAAAAGT 20898 29 100.0 36 ............................. CTAGTAAATTTTGCTAAAAGGCACTATTATTGTAGT 20963 29 100.0 36 ............................. CAGTTGACACAATGAGTAAAAGCGAAGCAGAGCAAG 21028 29 96.6 37 A............................ TTATGTTATAGGAGCAGGTTGCAAGAAGTATAAGCAA 21094 29 100.0 37 ............................. CATAGATTTTGGAGATTTAAGGGAAGGCAATATGTGT 21160 29 100.0 36 ............................. TAAATATAGAATAAAGCATTTTAGTTTACAATGCAA 21225 29 100.0 37 ............................. ACCTAAAAAATCAATGCAGCTTATCTTATATGCAATG 21291 29 100.0 36 ............................. ATTAAGGAATAGTAATTACAGTGGACTGGAGTTAGT 21356 29 100.0 36 ............................. ACGTTTCGCAAGGGATTTTTTAAAGCGAATGGATAA 21421 29 82.8 0 ................A.CA...C....T | ========== ====== ====== ====== ============================= ======================================= ================== 32 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 1 66378-63845 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKCF010000007.1 Clostridioides difficile strain LSHTM-93, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 66377 30 100.0 36 .............................. ATGTTTAAGTCAGATGGCTCACCAAATCAAATGTTT 66311 30 100.0 36 .............................. TTTATTGTAGCTGTTATAACTTCTTTATTTGTATTA 66245 30 100.0 36 .............................. TGATTTATTAGAGGAAAATAGAGAATTAAATATTAA 66179 30 100.0 36 .............................. TATTGCTCTAAATTTAGTAGACCAAGTTCAATTTCT 66113 30 100.0 36 .............................. TTAAATGCTTTATAAAGTATTAATTCATTTTGTAAC 66047 30 100.0 36 .............................. TATTAATCCTTCTATTGGAAAATATCGTCTTCAAGA 65981 30 100.0 36 .............................. TATAGTTTTGTAGCTCTTTCAAGTTCATCTGCATTT 65915 30 100.0 36 .............................. ATATATCTAAATGGATTATTATATCTAACTCCATCT 65849 30 100.0 35 .............................. ATTTTATAATGGTAAAAAAGAGTTTTACATAGCTG 65784 30 100.0 36 .............................. TTTTGAAGTTTAGTTATATCTGGGTCACCAGTCTGT 65718 30 100.0 35 .............................. CAGCATCTAAACCTTCTCTTCTTGCTTCCTCTGAA 65653 30 100.0 36 .............................. TTAAAATTCAATTTAGTAAATGAAGTTAATTCTGGA 65587 30 100.0 36 .............................. TTTTCTTTTGCAGCACTTCCTAGAACATCTCCATCA 65521 30 100.0 34 .............................. TCAAATCTAACTGATGTTCTTTTATTATCAAAAG 65457 30 100.0 36 .............................. TCTTTAGCTTTTTCTATTTCAGCAATTATCTCTACT 65391 30 100.0 36 .............................. GGATTATCCAATCTTTAATCTTATTACCATACCATT 65325 30 100.0 36 .............................. TATCTCTTAAAGCACTATCTAATTCAACAATAGTTG 65259 30 100.0 36 .............................. TATTGAACTTAGCATCTAATTTAGTATTTTTAGTAG 65193 30 100.0 37 .............................. TAGAATAAAAATTACTTGCAGAATAAAAAATGTCTTC 65126 30 100.0 36 .............................. TAGAAAAAAGTGTACATTGACAACTGAATATCCCCT 65060 30 100.0 36 .............................. TCCATCTACTTTTTTACTTTTAGCTTTTTCTTTAGT 64994 30 100.0 36 .............................. AGTCTGAAGATGAGCGAATGTGCTATATCTGTAATA 64928 30 100.0 37 .............................. TTAAATATAATAAATCGTAATGTACAAAAATAACTTA 64861 30 100.0 36 .............................. TTTCTTGAGTTAATTGAACCCCCATTTTTAAGCTCC 64795 30 100.0 36 .............................. TTTTCTTCTAGCTCTTTTTTCTTAGCCATTTTACCA 64729 30 100.0 36 .............................. ATGTTTATACATGAGTTTAGTGATAGGTTCTTGGTC 64663 30 100.0 36 .............................. AAGGCAAGTGATTTGCTATTTAGAATAGGTGTAAAC 64597 30 100.0 35 .............................. ATTTCTTTTTGTGAAGTGTTAAGAGATTGCTCTTC 64532 30 100.0 36 .............................. ACAGTAGCTATTCCAATTTCTTCTGCTTGTGGCATA 64466 30 100.0 36 .............................. TCAAAGATGCCCCTCTAGCTGGTTTTTGGGTATCTA 64400 30 100.0 36 .............................. TGTGTTGAGTCGTGATATTGACTTTTTCGGAAACGG 64334 30 100.0 35 .............................. TTGTAGTCCTTCCATTTCCATCACACAAAAAGCAT 64269 30 100.0 35 .............................. TCTATGTTATGTACATGATTACCTTGTTTGAGTAG 64204 30 100.0 36 .............................. TAAGAGTCTCTTTGTATATCAATTTCTCTAGTAGAT 64138 30 100.0 36 .............................. TAAATTATTAGTTTTAAAATTTAAAGGGGGAAAAAA 64072 30 100.0 36 .............................. GCTAACTTAATTACTTGTTCCACATTTGCTAATACC 64006 30 100.0 36 .............................. AAATATTCAATATAGTTTTTAAATACACTTTCCATT 63940 30 100.0 36 .............................. TCATTAGTACTTGTTATTCCAGTAAAAGCTACTTTG 63874 30 93.3 0 ...............A........C..... | ========== ====== ====== ====== ============================== ===================================== ================== 39 30 99.8 36 GTTAAACAGTAACATGAGATGTATTTAAAT # Left flank : CAGATTTAAAAGAGTATACAATCTTTTTAAATACTATAGTTAAAGATGAATCTGGAAATATGATTGTAGGAAGTGATGTATGGTATGAATATATATCACTACTAAAAAATGATAATGTTGAGTATTCTGAAAAGAGGGTGAAAATGTCTGAAATTATGGAAAAACTAGATTATTTTACGTATAAAGTTCAGAAATTTGATAATTCATTTAATGATTTAGTTGGAGATATTTTTTATATTGATGATGGAAGTAAGTATTTTACAGAGGGAAAGTTTGATAGAAGTAAATTTAATCAAAATGAATTTCTATAATGTATTTAGATTATATAGAGAATATTTATCCCAAGTTAATTAATTAGAATTAGTTTAAAGCTATTGAAATATAGATATTTTATATCTTATATATATTTTCTAGGATTAGCTGGGATAAAAAATCTGTATATTAGTGTTTTCAGTGTATTTAAGGGAATTATATTTTTAAGAAGTACTGATTTTAAAGTG # Right flank : TACTCTATCATAAAATTTTAATATATTAAACAAACTAATATGTGATATACTTATGTATAAATAACAAAATAAATAGGTGATGTTATGAAAATTACAGGAACTTTGATAAATTACTATTTCCATTGTAAAAGACAATGCTGGTTGCTTGGTAATAGAATAAATTTGGAAGAAAATAGTGAAGATGTAAAAATAGGTAGACTTCTTCATGAACTAAAAGAAGAAAAATCAAAATATAAAGAAATTGCAATTGAAAATATAAAAATAGACAAATTAACAAGAGAATATTTAGTAGAGGTTAAAAAGTCTGATGCTGATATAGAAGCTGTTAAGTGGCAAGTTCTTTTATATTTAAAAAAGTTAAAAGAAAAGGGAATTGTAAGAAAAGGGAAAATTGAATTTATAGAAAAAAATAAAACTAATAAAAAAATAGTCTTTGTAGATTTGAGTGAAGTATCTGAAGAACAGCTTATATCTATAGAAAGAGAAATTGTTAATTTAAT # 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [85.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA //