Array 1 296169-294953 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000001.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 296168 29 100.0 37 ............................. TTAATTTATCTATAATTTAAAACGGTGAATTACATAT 296102 29 100.0 37 ............................. TAAAGAGGGGTACTTCGTACTTTTACCACTCAAACTA 296036 29 100.0 38 ............................. AGGTCAAGCATAGATTTTGCAACTGGAAGATAAGAAGA 295969 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 295903 29 100.0 37 ............................. TTGTAAAATGTAAATAGCATATTAATTTTTCTTTCAC 295837 29 100.0 37 ............................. TGGAGCATTATGTTTTTAGGTTACGGAGCAACATTTA 295771 29 100.0 37 ............................. GGTGATAGTGGAAGTTTTACTTATACTTGGCGTGCTG 295705 29 100.0 38 ............................. TTCAGAATACTTAGCTCCTGCGCCTATATCGTCTGAAT 295638 29 100.0 36 ............................. AAAGTTTTGCGCATTGTATGTGTGCCTAGATTATCT 295573 29 100.0 37 ............................. ATGTCCCCACATCAATTTTCCTCCGCATGAAAAAATC 295507 29 100.0 37 ............................. TTTAGAAACAACAGAATAAACATAATATATAAGCATA 295441 29 100.0 36 ............................. CTATATCGCATATTCTTTTATCTAGGTCTTCTTTTC 295376 29 100.0 37 ............................. ATAATCTTGTTATAGACTTTACTATTGTTGTAATAGA 295310 29 100.0 35 ............................. CTTACCAGACCCTGCAACACTAAATGACTTACATA 295246 29 100.0 37 ............................. TCATCAGTATTTGTAAAATGCTTTAACTTATCATAAT 295180 29 100.0 39 ............................. TTTTACTTTTCCTTTCTATGTGTCCAATTCGGACACATT 295112 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 295046 29 82.8 36 .C.............CA..A...A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 294981 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 19 29 98.7 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%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 1 299396-300021 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000003.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 299396 29 100.0 36 ............................. TAGGATTGGTGTGTTACGACCACACAACGCTGGACT 299461 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 299529 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 299595 29 100.0 38 ............................. CTGCTTTGGCTTTTGGTCGTATAATGCTCCTTATAATA 299662 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 299728 29 100.0 38 ............................. AATAAAAAAGGTATAGTTTTCTTCTTAGTTACTGCCAT 299795 29 100.0 37 ............................. TGTTATAATATTAAAACACAACTAAAATATACAGAAA 299861 29 100.0 36 ............................. TCTAGTTTTTTCTCTTTAGAAAAAATAAAAACAACT 299926 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 299993 29 86.2 0 ............T......T...A....T | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGA # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 1 78844-78221 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000004.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 78843 29 93.1 37 ........................G...G AGGTTTTTCAGAAGTATATGTACGTCTATATTGTAAA 78777 29 100.0 36 ............................. AAGGAAGGTGGAAGTCAATATGCATGGGTCAAATGG 78712 29 100.0 36 ............................. ACGAAATTAGAGTTTGAAATATATGACTACATAATA 78647 29 100.0 38 ............................. TTGTGTCACATCATTGTCACTTCTTTAGAATATCAAAA 78580 29 100.0 38 ............................. TTTTAAGCAGGTGATTAAATGATTAAAAAAGTAGAAAA 78513 29 100.0 38 ............................. AATAACTTGTCAATGTAGTTATATGCAACAACTTCTAT 78446 29 100.0 37 ............................. GAATTATATATTATGAAAAAATATGGAGTCACAGAGG 78380 29 100.0 36 ............................. TTGCAGGTTTTCCTTATAGTTTGCCATATGTTCCTG 78315 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 78249 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 96.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGTATATGATAAACTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGGGTAAA # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTATTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGATCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATCTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 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: 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 [9-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%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 288186-287232 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000004.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 288185 29 100.0 37 ............................. TCTCCATCTCCAATTAACATAAATAATTCATCCGCTG 288119 29 100.0 38 ............................. CCGCTTGGCAAATCATAAGAAGGATTATTTTCTCCAAC 288052 29 100.0 35 ............................. AAAATAAAAGAGTTTGAATTACCCATTTTTTCATG 287988 29 100.0 39 ............................. TACGACATTGAATAAAATGGGTACAGAGACAATTTATAA 287920 29 100.0 37 ............................. TTTATAAATCTTTTAATGACTGTCTCTGATGGTACAG 287854 29 100.0 39 ............................. AAAGGAATAGATGATATGATTGCTAATGCTGAACAACAA 287786 29 100.0 34 ............................. GGGTCTGACTTTAATATATATATATATATAAATT 287723 29 100.0 37 ............................. TTATAAACTCCCACGACAAAATTAACTATAACCTCGT 287657 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 287591 29 100.0 37 ............................. GCAGAAGATTTAGCGACTGTTGTTGCTGAATGGGATG 287525 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 287459 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 287392 29 100.0 37 ............................. TGCTGTGCCACAATTTGATGCTTCTATAGCTAAATTC 287326 29 100.0 37 ............................. CTTTTAAGTGCATCAAAGGAGTTACAAGCTATATTTA 287260 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTATGAAATATCTGTAAATGAGTAGATATTTCATAAGTTAATATTTATTGTTTGTATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAAATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCCTAACAGTTGAAATATAAGGCATTGAGGGTATGTGATAAATGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAACATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGATTTAC # 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 116373-116995 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000007.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 116373 29 100.0 39 ............................. ATTCCGGAAAGTACTTTTGCTATTTGATTCATTCTACCC 116441 29 100.0 37 ............................. TTCACTAATTTTAGTTACAACTATTACAAGTCCAGCC 116507 29 100.0 36 ............................. TATGTGTAATGTATTTTAATGTTTTCTAGCAACAAT 116572 29 96.6 37 ................A............ TTTATAAATTCTATGAATAATTTTAAAGAGAGGTTTC 116638 29 100.0 36 ............................. TGTACATTTGACATAGAAGCTTCAAAATCCATCCCA 116703 29 100.0 37 ............................. GTAACAGCACGAATGATGGCACAGACCTATCTGCAAT 116769 29 100.0 39 ............................. AGAAGTACACTTACAAGTAAGATAAAAGACCCAGGTACA 116837 29 100.0 36 ............................. TCTGTAGCTATATGTGGAAGTAATTTTAGTAGAGAG 116902 29 100.0 36 ............................. TATTGAAGGGGTGAGAGTTGTGACTAGGCACTACAA 116967 29 89.7 0 .....G..........A......G..... | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.6 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : GGGTATGGAATAAATCTGCTAATAATGATATGTTAAATAATGATACTATTAGTGTTGTGCCTGAATGTCTTTTAGAAGAGTACAAGTTGTATATTGATAAAAAAATGTATTTAGAAGCGAGTTCATTATTTGTAAATGTATCTGTAAAAAGATACAATTATAATAAAAAGATGTTTTATGAATGTGGAGATATAGTTGTTACAAGTTATAGTTATAATGATAAACTAGGTCTAATATTTGATTGTTAAGAGAATTATAGTATAACTAATTAAAATATTTTATTGAGAATTTGTTATAATTTATATCGACTACAAATTTTATATGTTACAATAGAATAATTTTGCAGTGAGCGAAAAATATGTGTAAATGGCTGTGAGTTAGTGATGGCAAGGTTTATAACTGAATTTTTGTTTTTAGCTAAAAACACTACTGGTGCCTCACTGCAAATTAACTATTTTAATAACCCTACAAGTGTTGTAATTACTATAGTTTTATTTGGG # Right flank : TTTACTTATTCATTAAGAAACTTAACTGAGAGTTTGATTTATATTATTGAATTAGCAAGAGTTTTAGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAATAATAAAAAATATCCAAAAAAATTAGTATAACATCATAACTAAATAGCTATATACCTACACTTACGAAAACCAACAAAACAATCAAATAACCACTTGTAGACTCCCCTCGTCTCCACCAATTTTGAAAATGAAAATAATAGAATAAAAGGAATTACTTATGTTTGGACTAAGTAATTCCTTTTATTTTGCTTAAAAGCACACAATTAGCACACAACTAGAAGGTTATATAAATAAAAAGGCTGTCGCACTAGAAAATAGTGCTACGCTCTTTTTTGTATAAAAAAATAAATCCCAAGTTCAAAAGAACCTGGGATTCTTGTATAATAACTGTATGCTAAAACAAAATACTACACAAATTGATTATACTACTTATGGTGATAATTATC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 : GTTTAAATTACACTAAGTTAGTTATAAAT # 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: NA # Secondary Structural analysis prediction: NA [0.00,-0.30] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 26087-27767 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000009.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 26087 29 100.0 36 ............................. TTAAAGGTGCAAGTCTTAATACTTGTTACATGAGTT 26152 29 100.0 37 ............................. AACAAAGAACCATTTGAATCACGAAAACTAAAAAACA 26218 29 100.0 38 ............................. TTATTAACCTTATCAGAAACCTGACCATCCCAATTATA 26285 29 100.0 36 ............................. TCCATTTGTCTAATGCTTCTAACTCTTTTTTTATAC 26350 29 100.0 38 ............................. TCCAAAATGGGCTTGGAGTTAAGAGTTGTATAAGAAAC 26417 29 100.0 38 ............................. TAATTACACACTCCCTTTTAACGAACATATTTTAGATT 26484 29 100.0 41 ............................. AGACTCGACATAGAATCGGTTACTAAATCCGAGGGTTTCAG 26554 29 100.0 37 ............................. ACTAAACCTTTTTGTTTACTTTTATTTCTCATTTTAC 26620 29 100.0 37 ............................. CCGGATTTTTCTGCTTCGACTGTTGTTATTGAGACTT 26686 29 100.0 38 ............................. AGTAATTCCATGCAATCTTTTATATTGCTTTTTAACCT 26753 29 100.0 38 ............................. AGTAATTCCATGCAATCTTTTATATTGCTTTTTAACCT 26820 29 100.0 36 ............................. AGATATACAAGGTGAAAGTGTTGAAATTTCAATCTT 26885 29 100.0 36 ............................. ATTCTTAGATGTTATAATTTGTGTTGCATTTAAATC 26950 29 100.0 37 ............................. ACAATATTATTGTTCATTTCATTTAATAATTCTAGTA 27016 29 100.0 37 ............................. TTGTTTATACCTTTAATCTTTAAAATTAAATATAAAA 27082 29 100.0 37 ............................. CATTGTATACTAAGCTTGATATAGTGCAAAATGAAAC 27148 29 100.0 36 ............................. ACTAATTGGGTTAAACAAATGGATATAACTAAATTA 27213 29 100.0 37 ............................. CCAACCCTTCGCACGAATCCGTGCGACGAAATATAAA 27279 29 100.0 37 ............................. TGTAAAAATATTGCTTAGCATATTGATATCACTAACT 27345 29 100.0 37 ............................. ACAAGAGGTTTTTCAGCAATATATGTACTTCTATAAT 27411 29 100.0 38 ............................. TCATCAATATTAATTTTGGGAATATCAACATTTTTTGC 27478 29 100.0 37 ............................. GCGATAAGAGATTCGAGTCTTTTTACTGGGCTTAATC 27544 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 27610 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 27675 29 75.9 35 A...........TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 27739 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ========================================= ================== 26 29 97.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : TAAAATGCACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAGAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-78.3]%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 23495-23205 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000010.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23494 29 100.0 37 ............................. CTTTGTAATGGTAGTGTATTTAAGATTGAAACATCAA 23428 29 100.0 36 ............................. CAACATTAGTAGTTGTCTTTATACACATAGCATCAC 23363 29 100.0 38 ............................. ACAGCTCCCAAGACATACAACGAATCTGTAACATCAGT 23296 29 89.7 34 ................G...T.......A GACTTATTTACAGCTTTATTTGCTAAATCAGAAG 23233 29 86.2 0 ................G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : ATTGCAGGTGAAAAGAAGAATTATCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTAGTTTAGTTTTGGGGGGATTAATACAATGCATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTCTTAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTTCACTGTTTCAAGTGCTTTATATGGTAAAAAATGGTATAATAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTCAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TAAAAATAATTAAAAAACACTTACTAATGTAGGTGTTTTTTTATTGAAAGGAAGTGATTATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGAGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCACTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGAGATTTAAAATTAACTGTTAATAGCATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCATACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCATTCACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTGATGTA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [80.0-70.0]%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 2 25716-25359 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000010.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 25715 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 25650 29 100.0 37 ............................. TTCAGTGAGAATAAGCTTTATTGTCGATGTAACACTC 25584 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 25518 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 25453 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 25387 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 97.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATAGGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAATAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGAAAATACTCAACTTATTTTGGG # Right flank : TAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAATTACTTAATTATAAAGTTGCTAAGTACAACTTTTTAGAATTATACAATATAAAAATGCACTAAAGTGATTGATTTTGCTCAAGTTGGTCGGTTGAGTAAAATAATTAGAAAAAAATGTTAAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAAAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAGAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGCTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAG # 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 : GTTTTAGATTAACTATATGGAATGTAAAT # 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: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 3 118393-118099 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVQ010000010.1 Clostridioides difficile strain Den009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 118392 29 100.0 36 ............................. CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 118327 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 118261 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 118194 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 118127 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 97.9 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCTATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:0.8, 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], //