Array 1 200349-202288 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000002.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 200349 30 100.0 36 .............................. AGATAATAATCAAGAGATTTTAATAATAATTCAGTT 200415 30 100.0 36 .............................. TATTTTGAAGTTTTTAAATATATGACTAAATCTTGT 200481 30 100.0 36 .............................. ATATTATGTAAATATTTATTACGTTTCAAATCAAAA 200547 30 100.0 36 .............................. CAAGTCACTTTAAAATTAGAAAAACCGAGTTCAAAA 200613 30 100.0 37 .............................. AAGTAACTTCCCTCTTTTACTCTAGCTGTATACACAT 200680 30 100.0 36 .............................. CCAGCTATTAATTTGCCTTTAGGGACAGCAACTGAG 200746 30 100.0 36 .............................. AAAGTAAGTGGAGGTTTTGAGGAAAAAGTAAAAAAC 200812 30 100.0 36 .............................. TACCTGAGCAGTTGCTAATTTTAGTAGCTGCTCTTT 200878 30 100.0 35 .............................. AATGCCTCATGATAGGGATTTAGCTATTGAAGCGA 200943 30 100.0 36 .............................. TTTATCGAATATTTTTCACCCTCTCCAAATCTTAGC 201009 30 100.0 36 .............................. ATAACAACAGAGAGCAGGACATGGATGACTTAATGA 201075 30 100.0 36 .............................. TAGTGTAGGAGGTGTTTAAATTGTTTTTTATATATA 201141 30 100.0 36 .............................. AAATTTCCTGTTACAACATCTAAAATTAATAACACA 201207 30 100.0 36 .............................. CTGATACTTTGTTTTATTTCTTCTATTTTTAAACTT 201273 30 100.0 36 .............................. CTATTATTAGCAATACCTTGTGCTAAACCTTCATCA 201339 30 100.0 34 .............................. TTTTTTTAAAATTAGTAAATAAATATCTTACTTG 201403 30 100.0 36 .............................. GAAAGTCTCGACTCTGCATTATTAACTCGAATAGAC 201469 30 100.0 35 .............................. AATACCAATTAAAAAAGTAAGAAAAAAGGTAGGGT 201534 30 100.0 36 .............................. TAAAATATATGTTCCTTGCCAAATTCTTTTAAAATA 201600 30 100.0 36 .............................. AGTCTTGGGATTAGTGTAAAAGAATTGCCAACATAC 201666 30 100.0 35 .............................. CCTAAGGTTGATTCTGCTGAAAACTATGGGGACGA 201731 30 100.0 36 .............................. CCATCTTTATAGTATAAGTTATTATCTAATGAACAA 201797 30 100.0 36 .............................. ATATGCTGTAATTTAGTATATTGACTTTATATACTT 201863 30 100.0 36 .............................. TTGCATTGATACCTTGTAATAGATTTAAATGATATA 201929 30 100.0 36 .............................. AATTGAACTTTATCTTGTAATTTTTTAACGTAGCTA 201995 30 100.0 36 .............................. TTAGTTAACAAGCGTTTTTTAGCGTCTGATAGAATA 202061 30 100.0 36 .............................. TTTAAATATGTTATTACTGGAGAACTTACGTCATTT 202127 30 100.0 36 .............................. ACTGGTGAGGTTGAGGGTTTTGAGAGAAACGAAGTC 202193 30 100.0 36 .............................. TCATTAGTACTTGTCATTCCAGTAAAAGCTACTTTG 202259 30 93.3 0 ...............A........C..... | ========== ====== ====== ====== ============================== ===================================== ================== 30 30 99.8 36 GTTAAACAGTAACATGAGATGTATTTAAAT # Left flank : CAGATTTAAAAGAGTATACAATCTTTTTAAATACTATAGTTAAAGATGAATCTGGAAATATGATTGTAGGAAGTGATGTATGGTATGAATATATATCACTACTAAAAAATGATAATGTTGAGTATTCTGAAAAGAGGGTGAAAATGTCTGAAATTATGGAAAAACTAGATTATTTTACGTATAAAGTTCAGAAATTTGATAATTCATTTAATGATTTAGTTGGAGATATTTTTTATATTGATGATGGAAGTAAGTATTTTACAGAGGGAAAGTTTGATAGAAGTAAATTTAATCAAAATGAATTTCTATAATGTATTTAGATTATATAGAGAATATTTATCCCAAGTTAATTAATTAGAATTAGTTTAAAGCTATTGAAATATAGATATTTTATAGCTTATATATTTTTTCTAGGATTAGCTGGGATAAAAAATCTGTATATTAGTGTTTTCAGTGTATTTAAGGGGATTATATTTTTAAGAAGTACTGATTTTAAAGTG # Right flank : TTACTCTATCATAAAATTTTAATATATTAAACAAACTAATATGTGATATACTTATGTATAAATAACAAAATAAATAGGTGATGTTATGAAAATTACAGGAACTTTGATAAATTACTATTTCCATTGTAAAAGACAATGCTGGTTGCTTGGTAATAGAATAAATTTGGAAGAAAATAGTGAAGATGTAAAAATAGGTAGGCTTCTTCATGAACTAAAAGAAGAAAAATCAAAATATAAAGAAATTGCAATTGAAAATATAAAAATAGACAAATTAACAAGAGAATATTTAGTAGAGGTTAAAAAGTCTGATGCTGATATAGAAGCTGTTAAGTGGCAAGTTCTTTTATATTTAAAAAAGTTAAAAGAAAAGGGAATTGTAAGAAAAGGGAAAATTGAATTTATAGAAAAAAATAAAACTAATAAAAAAATAGTCTTTGTAGATTTGAGTGAAGTATCTGAAGAACAGCTTATATCTATAGAAAGAGAAATTGTTAATTTAA # 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: R [75.0-85.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 2 312760-313118 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000002.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 312760 29 100.0 36 ............................. TAATCTTTGACTACTTCGTTACAAGCAAGATATTAT 312825 29 100.0 37 ............................. ACGACAAAATTAACTATAACCTCGTAATTATCTAAGT 312891 29 100.0 37 ............................. AAAAATCTGGTAAACTATCTTCTATATTTCTCTCGAC 312957 29 100.0 37 ............................. TCGTAATAATACTCTTTGACTGCATACCAAACATCTT 313023 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 313090 29 86.2 0 ............T......T...A....T | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 97.1 37 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGA # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 : GTTTTATATTAACTATATGGAATGTAAAG # 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 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-85.0]%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 3 356670-356896 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000002.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 356670 29 100.0 37 ............................. TCACAAGCCACAAACATAAAAGTGAAAGTATAAAGAA 356736 29 100.0 37 ............................. ATTATAAGTAACGAACAATTTTATTTTGTTCAATCTC 356802 29 100.0 37 ............................. TTAAGATTTTATTTAGCTCATTCTCAAAAATAATTTT 356868 29 89.7 0 .........T........T.........C | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 97.4 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATGTTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTATCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAAAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTGTATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCACTATTGCGTGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : CTTTTTATTACATTAAAAGCAATTCTCCTAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGCTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATACTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTTTATATCAACTATGTGGTATGTAAAG # 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:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 232879-232523 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000001.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 232878 29 100.0 38 ............................. AAAATTAACTTGTTTTTCTTTTCTTTTACTAATTCAAG 232811 29 100.0 36 ............................. AATATCATGATTGCATTATTTTTAATTGAAGTCCAA 232746 29 93.1 36 G..............T............. AATATCTTTTGCAACATGTAAAGACTTCCCCGAACC 232681 29 96.6 34 ...............T............. AATCTGTTAATTGTTTCTTGCTCTGCAATGTCTC 232615 29 100.0 36 ............................. TTTGCAATAGCTTGTTTCATAAAATATACACACTGA 232550 28 86.2 0 ...............T....A..-....A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 96.0 36 ATTTTATATTAACTAAGTGGTATGTAAAG # Left flank : ATTATATGTTATAATGATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAGTAGACTTTAACAGTTGCAATGTAAGGCATTGAGAGTGTATGATAAGTGTTATCAACTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTAAAAATAATCAAAAAACACTTGCTTATGGTAGGTGTTTTTTTAATTGAAAGTATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGGTTATTTGGAGGAAAAGAACCATGCTGCATATGCGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAGTGAATATCTGTGCAATAATTGTTTTGTTGATTTTACAATATTCTCTAGTGAAAGATTAAAGATAACTAGTGCGATGCAAGTATTAGCAGACCACGAGGGAATAAGAAAGTTTATAAATTTTTCTAAGAAAAATAGAGAGCTATTAGAAAAATTTGTTGAGACAAATAGAATCAATAAATTCATATCAATTGATGAAAATAATAAATTTATTAAAATATCAGATATTCGTAAAGGTGGAGATATAATAGAAACCGTATATGCAACTGATGAAATTATAGAGTTTGAACTTTTAGAAGATGAAGAG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 : ATTTTATATTAACTAAGTGGTATGTAAAG # 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 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 326736-325981 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000001.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 326735 29 100.0 36 ............................. TACAAAGAGTGCAGAAACAGTTTAAAAGGTCAAAAA 326670 29 100.0 36 ............................. TCTGTAACCGCTAACTCTTTTGCGTCTATATAAGTC 326605 29 100.0 37 ............................. TTATTTTATCTATATTCATATCTACAACCTTTAAAAA 326539 29 100.0 38 ............................. TCAACCGGCAAATCATAAGGAGGATTATTTTCTCCAAC 326472 29 100.0 36 ............................. TCGGCAATATTGTAAGTATTATTAGCACAACACTTA 326407 29 100.0 37 ............................. ATAGGAATGACTTTGCAACCATTAAATATAAAATTTA 326341 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 326274 29 100.0 37 ............................. AAAGAAATATGCGCACTTGATATACTTGGATATATAG 326208 29 100.0 37 ............................. CTATCAGAAAATAAATATAAACTATTTAAATATAATT 326142 29 100.0 37 ............................. CTTTTTGAGTATGAATATAAACATCGTAAATTGAATA 326076 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 326009 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 99.1 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGTATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTGCACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACATATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GTTTTATATTAACTATATGGAATGTAAAT # 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:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 440077-439324 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000001.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 440076 29 100.0 37 ............................. TAATTTAAGGATTAGTTAGGTATTTATAACAAAAAAG 440010 29 100.0 37 ............................. GCTCCCAATTTGCTCCGTTTTTCAGTTCTGAATCAGT 439944 29 100.0 36 ............................. AAGGTTGTTAGTTCTAGTAGTGGAGATGCTGGAGAG 439879 29 100.0 36 ............................. CCACCTGAATTATAAGGGTATTTACCTTGTTCTAAA 439814 29 100.0 37 ............................. TATTTAGATAACAATCTTTTAAGTACTGTTTTAACTG 439748 29 100.0 37 ............................. GTCTTTGCATTTACAAGTCTTACCCTTTTACGTTCTT 439682 29 100.0 37 ............................. TATGTTTAAAATTCGTTTCTTTTTCTTCATATAAAAC 439616 29 100.0 38 ............................. TTGCAATACTTTTGATGCTTATTTTAGATTAAATTCAA 439549 29 100.0 38 ............................. AAGCTTCATCACCATATATCATCAAAGCTATTTTATTA 439482 29 100.0 35 ............................. ACTGCAGCTATAGAATTATAACTTGAAGGAACATT 439418 29 96.6 37 ............................T AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 439352 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 97.1 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTAAATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTTTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGATTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 649286-648329 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000001.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 649285 29 100.0 36 ............................. TAAAAAATTTCCGAATTATCCTCTTTCGTAATACCA 649220 29 100.0 37 ............................. ATTTTAAATCGTTATTTTGATTTTCTATAACAGTATC 649154 29 100.0 37 ............................. TCATCAAAGTATGCTAAATTTAATTCTTTTTCTGTTG 649088 29 100.0 38 ............................. GGAAGAAGAAATAAAATACAAAGAAAAAATAAAATCTC 649021 29 100.0 39 ............................. AATATAGCTATTGAAATAGATGCTACAGCTATATCTCTT 648953 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 648887 29 100.0 38 ............................. AAAATCCATCAACTCATTATTTTTTTCAAATCTCACAA 648820 29 100.0 37 ............................. ATGATAAACCCAATAGGATTGACACGTTACGACCGTG 648754 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 648688 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 648621 29 100.0 37 ............................. ATTTTGAATACTTGTATAATGTACATTTAGTTTATTT 648555 29 100.0 37 ............................. AATCTGAATGACATTGCAACACTTAAAGCAATTAAAT 648489 29 100.0 37 ............................. AGTGTTTAGTCGGCTCTTGCAGTGTTCTCTGTCGAGT 648423 29 100.0 37 ............................. TAGCTAGTTTGAGGAAATGCAATCTTTAAATTATTTA 648357 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGTAGATATTTCATAAGTTAATATTTATTGTTTGTATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACATATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGA # 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 : 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 [75.0-70.0]%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], // Array 1 24675-26151 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000012.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 24675 29 100.0 37 ............................. AAATTTCTAAAAAACTAAAATTACGTTTAAACTCATT 24741 29 100.0 37 ............................. TTTTTCTGTAAAATATAGTTATTTCAACGTATATACT 24807 29 100.0 37 ............................. TATAAAATTCTAATTCTGATAGATATTTTCAATATAA 24873 29 100.0 37 ............................. TTTATTTATCTACTTGATAGAATTATATATCATAATT 24939 29 100.0 36 ............................. GTAATTGAAAGCAATATCATAATCTCTAACGTTTTC 25004 29 100.0 37 ............................. TATAAATAAATAAACAAAAAACAAAAACAATTATTTT 25070 29 100.0 36 ............................. ATAATTAACAGCACAAAAAGTAGAAATCGGAAGTAA 25135 29 100.0 37 ............................. CAACCAAGCAGTCGCAGAGTTTTCTTTCATATTAAAA 25201 29 100.0 38 ............................. AAGTCACACAACCCCCAAGCATTTAAAATTAGTTTAAG 25268 29 100.0 36 ............................. GTATATGTAATTTTTATAACTGATGGAGATAATTTT 25333 29 100.0 37 ............................. GAAGATATTTCTGTAAAAATCAATAAAAGATTAAAAG 25399 29 100.0 38 ............................. AGATATTGTTTAAATTCTCTGACTAGGAAAATTGATGG 25466 29 100.0 38 ............................. GAGGAATATCTTTAACAGTAATCAAATTTTTAACCCTA 25533 29 100.0 37 ............................. GCGATTAATTGGTCAATCTTAATATTTTGTTTCTCAT 25599 29 100.0 37 ............................. TCGATAATCTGATTAGTTTTCCAACCTGCCATGCCCG 25665 29 100.0 37 ............................. AAGCGAGGATTTAAAGAGTTAATAAAAAGAGATTTAA 25731 29 100.0 39 ............................. AAGACTGTCTTAAATAAAAAGAAAACAGAGCCACAACAG 25799 29 100.0 34 ............................. GTTCATCACTAGCAAAATCAGCTACTACTCTACC 25862 29 100.0 37 ............................. GAGCGTGTCGGAAACCCAAGTTCATTAAAATTAATAC 25928 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 25994 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 26059 29 79.3 35 ............TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 26123 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================= ================== 23 29 97.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGCGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAATACCTAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 : 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 [0-17] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-80.0]%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 32263-32953 **** Predicted by CRISPRDetect 2.4 *** >NZ_VIML01000007.1 Clostridioides difficile strain Gcol.A65 .cdiff_col_A65.7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 32263 29 100.0 37 ............................. CAAGAATTAAAAGATAACTATGATAAAAATTGTAAGG 32329 29 100.0 37 ............................. TTACTTATATTTGCTCTTTCTTTAAATTCCATTTTTT 32395 29 100.0 38 ............................. ATAGCTAGTCTACATTTTGTTCTATTCTTTTCTAAATT 32462 29 100.0 37 ............................. TTTTTCAGATATTTTCTTTTTCTCATAGAACTTTCTT 32528 29 100.0 36 ............................. GCTCTTGTCGCAGTTGCCCCTGAAATTATCGATGTT 32593 29 100.0 39 ............................. AAACACCAGACATCTGCTCTTGGGATATTTTCTGTTCTA 32661 29 100.0 38 ............................. CTCTCTGTATCAAGAAATTTCATTCTTACCACATCCTA 32728 29 96.6 37 ...........G................. CTATTGTAGTTGTACCTTTACCTCTCATTTTTGCTTT 32794 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 32860 29 86.2 36 .C.............CA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 32925 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 11 29 97.8 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAATTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGAAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-75.0]%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], //