Array 1 26579-28654 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000012.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 26579 29 100.0 37 ............................. ATACAAGCTATAGCTGATATAGCTGACAGCTTATTTA 26645 29 100.0 38 ............................. GTATGCGGTGGAAGTGTATTTAAACTTGAAACTAGCAG 26712 29 100.0 37 ............................. TGGGATTTTGCTAGAATATTTGAAGTTTTTAATGTTG 26778 29 100.0 37 ............................. TATAGATATATTAAATGGAAAAGCGTTAAAAAACAAG 26844 29 100.0 37 ............................. AGAAATGATTATTTAATTAGGGCACATGAAGGAGAGA 26910 29 100.0 37 ............................. AAAGTTGAAAATCCTAGTCTTGATGTTGGAGATAATA 26976 29 100.0 37 ............................. GCATCTTGTGGGTTTATATGTTGTGTATTTAGCCCTG 27042 29 100.0 37 ............................. AAACAGTTGAGGAAATTGAATTAAATACATTAGACGG 27108 29 100.0 38 ............................. TCTGTGACAGTCAATTCTCTTGCATCTATATAAGTCCC 27175 29 100.0 37 ............................. GTTGCTCTTTCTAAGTCGCAATCATTTTTAAACATCT 27241 29 100.0 38 ............................. CGGCTTCGCCAAAACTATTATATTTTATCTCATTTATC 27308 29 100.0 37 ............................. AATTCCATAACGGAAGGAGGTGGAGTGATATGGTAAT 27374 29 100.0 37 ............................. TACGATTGACATTACAAAAGAGGATGGCAAAAAGTAT 27440 29 100.0 37 ............................. TCTGCAACAATTAACTTCTAGTGCTATTTTAGTCTTT 27506 29 100.0 36 ............................. TTATTTTTATAGTATTGTCTTTTAGCGTGTGGAGAC 27571 29 100.0 37 ............................. GTCATATTCTTCAGTTTACCCTTAGTTTGTTCTTTAG 27637 29 100.0 35 ............................. TATCTCCTTTTGCTCCTGGTTGACCTGGAGTGCCA 27701 29 100.0 37 ............................. AGGCTATAGTAAAAGGGTTCATTGCCATAACTAGCGC 27767 29 100.0 37 ............................. ATATTACAAATATGTTCAATAGCCTTTTCACTTGCAA 27833 29 100.0 39 ............................. AATGGATAGAAACGCAAAATAATCTTGGGGAGTTGCCCG 27901 29 100.0 38 ............................. TTTTTTAGTTCTGCGTCAGTTGGTGAAAGAGATGCAAC 27968 29 100.0 38 ............................. CAAAAATAAGAGGATAGGGGGGCAACACTTAGTGGAAG 28035 29 100.0 37 ............................. CTCATTATTTCTCTATATTTTACAACGGCATTTAATT 28101 29 100.0 36 ............................. AAAACTAAGAGGAGCAGAGAGTGGTCTTTTTTCATA 28166 29 100.0 38 ............................. TCGCACGAATCCGTGCGACGAAATATAAAAATAATTAA 28233 29 100.0 37 ............................. TCAATAATTAAAACTTTTTTGTTCATTTTAGACAAAT 28299 29 100.0 37 ............................. TTCGAAAAGTTCATCCATGTAGTTTTTAAATTCTTCT 28365 29 100.0 37 ............................. AAGCGAGGATTTAAAGAGTTAATAAAAAGAGATTTAA 28431 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 28497 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 28562 29 75.9 35 A...........TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 28626 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================= ================== 32 29 98.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : TAAAATGCACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAGAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 168164-169313 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000002.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 168164 30 100.0 35 .............................. TGTTATAAAACTTATAATTTAAATCATAATACATT 168229 30 100.0 36 .............................. TTGAAAAAGAAGAGGAAAGTAACAGCTCTATTTAAA 168295 30 100.0 36 .............................. CAAGTCACTTTAAAATTAGAAAAACCGAGTTCAAAA 168361 30 100.0 37 .............................. AAGTAACTTCCCTCTTTTACTCTAGCTGTATACACAT 168428 30 100.0 36 .............................. CCAGCTATTAATTTGCCTTTAGGGACAGCAACTGAG 168494 30 100.0 36 .............................. AAAGTAAGTGGAGGTTTTGAGGAAAAAGTAAAAAAC 168560 30 100.0 36 .............................. AGTCTTGGGATTAGTGTAAAAGAATTGCCAACATAC 168626 30 100.0 35 .............................. CCTAAGGTTGATTCTGCTGAAAACTATGGGGACGA 168691 30 100.0 35 .............................. TTTATAATGATTACATAGAAAAAAAGGGGGTATAT 168756 30 100.0 36 .............................. ATTAAGTCCCCAACCTCAATACTATAGTATTTTTGT 168822 30 100.0 36 .............................. GCATAATATCTTGATGATTCAATTGAAAACAAATTT 168888 30 100.0 36 .............................. ATATGCTGTAATTTAGTATATTGACTTTATATACTT 168954 30 100.0 36 .............................. AATAATATCCGGGGTAGGTTTTCCAATTTTCATGTG 169020 30 100.0 36 .............................. TTAGTTAACAAGCGTTTTTTAGCGTCTGATAGAATA 169086 30 100.0 36 .............................. TTTAAATATGTTATTACTGGAGAACTTACGTCATTT 169152 30 100.0 36 .............................. ACTGGTGAGGTTGAGGGTTTTGAGAGAAACGAAGTC 169218 30 100.0 36 .............................. TCATTAGTACTTGTCATTCCAGTAAAAGCTACTTTG 169284 30 93.3 0 ...............A........C..... | ========== ====== ====== ====== ============================== ===================================== ================== 18 30 99.6 36 GTTAAACAGTAACATGAGATGTATTTAAAT # Left flank : CAGATTTAAAAGAGTATACAATCTTTTTAAATACTATAGTTAAAGATGAATCTGGAAATATGATTGTAGGAAGTGATGTATGGTATGAATATATATCACTACTAAAAAATGATAATGTTGAGTATTCTGAAAAGAGGGTGAAAATGTCTGAAATTATGGAAAAACTAGATTATTTTACGTATAAAGTTCAGAAATTTGATAATTCATTTAATGATTTAGTTGGAGATATTTTTTATATTGATGATGGAAGTAAGTATTTTACAGAGGGAAAGTTTGATAGAAGTAAATTTAATCAAAATGAATTTCTATAATGTATTTAGATTATATAGAGAATATTTATCCCAAGTTAATTAATTAGAATTAGTTTAAAGCTATTGAAATATAGATATTTTATAGCTTATATATTTTTTCTAGGATTAGCTGGGATAAAAAATCTGTATATTAGTGTTTTCAGTGTATTTAAGGGGATTATATTTTTAAGAAGTACTGATTTTAAAGTG # Right flank : TTACTCTATCATAAAATTTTAATATATTAAACAAACTAATATGTGATATACTTATGTATAAATAACAAAATAAATAGGTGATGTTATGAAAATTACAGGAACTTTGATAAATTACTATTTCCATTGTAAAAGACAATGCTGGTTGCTTGGTAATAGAATAAATTTGGAAGAAAATAGTGAAGATGTAAAAATAGGTAGGCTTCTTCATGAACTAAAAGAAGAAAAATCAAAATATAAAGAAATTGCAATTGAAAATATAAAAATAGACAAATTAACAAGAGAATATTTAGTAGAGGTTAAAAAGTCTGATGCTGATATAGAAGCTGTTAAGTGGCAAGTTCTTTTATATTTAAAAAAGTTAAAAGAAAAGGGAATTGTAAGAAAAGGGAAAATTGAATTTATAGAAAAAAATAAAACTAATAAAAAAATAGTCTTTGTAGATTTGAGTGAAGTATCTGAAGAACAGCTTATATCTATAGAAAGAGAAATTGTTAATTTAA # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 279762-280190 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000002.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 279762 29 100.0 37 ............................. CATATAAAATGATTGGTGCAACTGGAAAAGGATCTAT 279828 29 100.0 40 ............................. TAGATGATATTTCTCTATTTTCGTGTCTATATGATGCAAT 279897 29 100.0 36 ............................. CTGATAGAATTTATGACTTTGAAAGAGGCAAATTTG 279962 29 100.0 38 ............................. ATTGAAAAAACTGGCTTTCAGCTTGAAATTTTGTGAAC 280029 29 100.0 37 ............................. TCTTTATCAATAGAGATTCCGTTATCTGAATTATATC 280095 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 280162 29 89.7 0 ...................T...A....T | ========== ====== ====== ====== ============================= ======================================== ================== 7 29 98.0 38 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAGAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGACTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [0-4] 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 321800-322029 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000002.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 321800 29 100.0 39 ............................. TACAAACAGAGTGTCCAACTTGTAAAAGACCTCTAGAAA 321868 29 100.0 38 ............................. ACGAGATACAGACCTATTGAAGAAGCTATAATAACTTC 321935 29 100.0 37 ............................. TTAAGATTTTATTTAGCTCATTCTCAAAAATAATTTT 322001 29 89.7 0 .........T........T.........C | ========== ====== ====== ====== ============================= ======================================= ================== 4 29 97.4 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATGTTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTATCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCACTATTGCGTGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # 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 25099-24371 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000022.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 25098 29 96.6 37 ................A............ AAATTATGGGCGATATTATACTCCAGTTTTGGGTAAA 25032 29 96.6 36 ................A............ TAGAAATACTTTGAACAGTAAAAACTATCGTTCAGA 24967 29 100.0 37 ............................. AACGCAGATACCAGTCCAGATGAGTTGAATGCTTTAC 24901 29 100.0 36 ............................. ATGTATTTGCACAGAATTGGTCAATTATTTCACCTC 24836 29 96.6 36 ............................G AAATATAATTTCACACTTTTGCAAATCATTTCTTCT 24771 29 96.6 36 ............................G TCTAAAACACGAACTAGTTCAATACTATTATGACAA 24706 29 96.6 18 ...............T............. GGTTTATCAGAATTTACA Deletion [24660] 24659 29 100.0 37 ............................. TCAAATATAAAAGACTTTACATCTTTGCCATCGATTG 24593 29 75.9 33 G...............A...C.A..C.GC ATTCTAAGTGGGTGGTAAAACACCATATACCTC 24531 29 93.1 38 G...........................G ATTACATGGGTAGTATTAGGCATTCTAGCTTTCATAGT 24464 29 86.2 37 G............A.T............G TCGTTTATCATTGCTAGCCTAGCATTCGTACTGGTCA 24398 28 82.8 0 ...............T....AC.-....A | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 93.4 35 ATTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATTATATGTTATAATGATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGCGATAAATTGAAGTTTAACAGTTGCAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTAAAAATAATCAAAAAACACTTACTCAGGTAGGTGTTTTTTGATTGAAAGAAGGTGATTATAATGTAAAAATTTTACTGATATAGTATAATAATCCTATAAATTCATTATAATAAAGGGGGATATTATGGGATTATTTAGTGGAAATGAAAGTTGTTGTATATGTGGAGAAAAAGGTAAACAAAAAATATCTGATGGTGTAATATGTTCTGAATGTTTAAAAAAATATAAAGATACATTTTCTATAGTCGAACCAACAGATGTAATTAAAAAAATATCTTCTGAGGAAATAAAAAAATCAATAAGATTAACACTTGAAAATAAAAAAAGATTTGAATCTTTTAACGCAAGTAAAAAAGTAGGAATTTATTTATTAGTAGATGAAAATAAAAAACAATTAATTATATCTGATAAAATAAGCAATTTAAATAAGAATAAGAGAGTATATGACTTTAGGGATATTATTTCATTTGAACTTTTAGAAGATGATGAATCTATAA # Questionable array : NO Score: 5.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.67, 5:0, 6:0.25, 7:-0.09, 8:1, 9:0.41, # 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 : ATTTTATATTAACTAAGTGGTATGTAAAT # 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:81.48%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-71.7]%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 47693-47265 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000025.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 47692 29 100.0 37 ............................. AGCTTTTTTTAATGCAACAATGCTTTTAACTGCACTA 47626 29 100.0 38 ............................. GTAACTTTGTAGTATGAATAATGATAAGTTACTGTAAA 47559 29 100.0 37 ............................. GATATAGGTAATGATGAAAACTGGCAAAATGGAAGAG 47493 29 100.0 37 ............................. GCTGATAAAAGACAATGGCACTATAATTATAACACTA 47427 29 100.0 38 ............................. TTTTTCGCTGATACTTTGTTTTATTTCTTCTATTTTTA 47360 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 47293 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 98.5 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAAACATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAAAATGACATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTAGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGCGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTATATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCTATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : GGTTTTATATTAACTATATGGAATGTAAAT # 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:83.33%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 [4-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-70.0]%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 1 58087-57398 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000027.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 58086 29 100.0 37 ............................. GTTTCTTCAAGGGCTGATTTTAAGGTTGCAAGTCCAC 58020 29 100.0 36 ............................. TAAAGTTTCTCACCTCGATAAAAAAACGTATAATAA 57955 29 100.0 37 ............................. CTTATGGAAGTTGTAAATACGACAGACCAGGGAGTAG 57889 29 100.0 37 ............................. AACAATTCTATTGAATGTTTCAATTCTTCTACATCAT 57823 29 100.0 38 ............................. TAATTTTTTCTTTTGTTTCTTTGTATTGTTCATACAGT 57756 29 100.0 37 ............................. TCTGAATACGGAACATAAATAGCAACAGTACCAGAAT 57690 29 100.0 37 ............................. AAAGGTTTGATTAAAGATTATTCAAAATCTTTTGATT 57624 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 57558 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 57492 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 57426 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTATTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAACATGCAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 : 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%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 94248-94021 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000005.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 94247 29 100.0 37 ............................. GAATAAAAATATATCATAGCAAAACCTCCAAACTTTA 94181 29 100.0 37 ............................. TTGTCATTGTCTTGCCCTTGTACAACTACCATATAAG 94115 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 94049 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 92.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TTAAATATCTAGGGTTTTATTTGACGTGATCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATAAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCAATCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGTTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTGGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 5.47 # Score Detail : 1:0, 2:3, 3:0, 4:0.61, 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 : 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 [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-63.3]%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 1 32475-32816 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVB010000007.1 Clostridioides difficile strain lsh22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 32475 29 100.0 36 ............................. AAAACTAAAGTTTCTACAATACCTCTATCCTTTGTT 32540 29 100.0 37 ............................. GTAATAAGCTTCAAGATTTTTATTATTCAGATGATGA 32606 29 100.0 20 ............................. ACTAAATTCAATGCTATCAC Deletion [32655] 32655 29 100.0 37 ............................. AAATTAGAGTCAGCTTTACATAAAGCTTTTGATAATA 32721 29 93.1 36 .................C..........T CATGATATAATTTTGAAGTTATCAGATTTTTTCAAT 32786 29 89.7 0 ...............T.......T....A | GA [32807] ========== ====== ====== ====== ============================= ===================================== ================== 6 29 97.1 33 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : ATGTTATAATATTTTTAGCAAGGAAAATAAAATTGAAAAGCGAAGGGTGATTTTCTCATATAAACGCCAAATTCCAATATAGGAAGGAGGTGAATTTATATGTTAATTAACTTTTTATTGAGTATAGTAGCTGGTATTGTATCAGCTTTCATATATGACAAAATAAAAAATCACCCAAACGCCAATAAGGGTGATTTAAAGAAATAACTTTTAAATTCTAATCAATTAGAGAAATTCACCTTTTACAAAGTAAATTTTATCTCCTTGCTATTATTATATCACAAATTGGTATAGATATTCAAAAATAATATTTTATGATATAATAAAAATATAAATAGTTTTGCAGTGAGCGATATTTGCTACAAAGTAAGGCTTAACGCTTGAAATATAAGGTGTTGAGGGGGTATGATAAGTGTTATCATTTGCACTACTCATGCTTCACTGCAATTTTAATAGTATTGTATATGTGTAAACATTGGAAATACTCAATTTATTTTGGG # Right flank : AAGTTGCAATGAGTAGAATAAGATTTCTATTTATAGCAACTTTTTTTACATAAATATATAAATAAAATATATTATAAAAAATATTATAAAAACAAGAAAATACAAAAAATTATAATTAAAAATACGATTAATAATATATAGGAATGGAAAAAACTACCAACTCTCTACAAATTTCGATTTTTTTATTACAATTACGCTTTTTTTATTGCATTTGGAAAACAAAAGTATTATTATGTAAGTAAGATAATTATCAAACACAATTCTGAATAATCGAAAAACGTTTCTAGAAATGAAAAAGGTATAATTACATAGTTTTTATTAAAAATTGTTGGGAGTTTTTAACTAAATATAAGAACATAAGTTCTAAAAATAGGGGGATGGTATAGTTGAAGAAAGACGAGTATTTAAAAAAGAATAAATCTAAATTAGAAAAGATTCTTAAAGCAGAACCTAAAAAGTATGAATACATAATAAAATTAATAGAAGAAGAAATGAGTAAA # Questionable array : NO Score: 5.91 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.19, 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-80.0]%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], //