Array 1 199734-201673 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000002.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 199734 30 100.0 36 .............................. AGATAATAATCAAGAGATTTTAATAATAATTCAGTT 199800 30 100.0 36 .............................. TATTTTGAAGTTTTTAAATATATGACTAAATCTTGT 199866 30 100.0 36 .............................. ATATTATGTAAATATTTATTACGTTTCAAATCAAAA 199932 30 100.0 36 .............................. CAAGTCACTTTAAAATTAGAAAAACCGAGTTCAAAA 199998 30 100.0 37 .............................. AAGTAACTTCCCTCTTTTACTCTAGCTGTATACACAT 200065 30 100.0 36 .............................. CCAGCTATTAATTTGCCTTTAGGGACAGCAACTGAG 200131 30 100.0 36 .............................. AAAGTAAGTGGAGGTTTTGAGGAAAAAGTAAAAAAC 200197 30 100.0 36 .............................. TACCTGAGCAGTTGCTAATTTTAGTAGCTGCTCTTT 200263 30 100.0 35 .............................. AATGCCTCATGATAGGGATTTAGCTATTGAAGCGA 200328 30 100.0 36 .............................. TTTATCGAATATTTTTCACCCTCTCCAAATCTTAGC 200394 30 100.0 36 .............................. ATAACAACAGAGAGCAGGACATGGATGACTTAATGA 200460 30 100.0 36 .............................. TAGTGTAGGAGGTGTTTAAATTGTTTTTTATATATA 200526 30 100.0 36 .............................. AAATTTCCTGTTACAACATCTAAAATTAATAACACA 200592 30 100.0 36 .............................. CTGATACTTTGTTTTATTTCTTCTATTTTTAAACTT 200658 30 100.0 36 .............................. CTATTATTAGCAATACCTTGTGCTAAACCTTCATCA 200724 30 100.0 34 .............................. TTTTTTTAAAATTAGTAAATAAATATCTTACTTG 200788 30 100.0 36 .............................. GAAAGTCTCGACTCTGCATTATTAACTCGAATAGAC 200854 30 100.0 35 .............................. AATACCAATTAAAAAAGTAAGAAAAAAGGTAGGGT 200919 30 100.0 36 .............................. TAAAATATATGTTCCTTGCCAAATTCTTTTAAAATA 200985 30 100.0 36 .............................. AGTCTTGGGATTAGTGTAAAAGAATTGCCAACATAC 201051 30 100.0 35 .............................. CCTAAGGTTGATTCTGCTGAAAACTATGGGGACGA 201116 30 100.0 36 .............................. CCATCTTTATAGTATAAGTTATTATCTAATGAACAA 201182 30 100.0 36 .............................. ATATGCTGTAATTTAGTATATTGACTTTATATACTT 201248 30 100.0 36 .............................. TTGCATTGATACCTTGTAATAGATTTAAATGATATA 201314 30 100.0 36 .............................. AATTGAACTTTATCTTGTAATTTTTTAACGTAGCTA 201380 30 100.0 36 .............................. TTAGTTAACAAGCGTTTTTTAGCGTCTGATAGAATA 201446 30 100.0 36 .............................. TTTAAATATGTTATTACTGGAGAACTTACGTCATTT 201512 30 100.0 36 .............................. ACTGGTGAGGTTGAGGGTTTTGAGAGAAACGAAGTC 201578 30 100.0 36 .............................. TCATTAGTACTTGTCATTCCAGTAAAAGCTACTTTG 201644 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 312145-312503 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000002.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 312145 29 100.0 36 ............................. TAATCTTTGACTACTTCGTTACAAGCAAGATATTAT 312210 29 100.0 37 ............................. ACGACAAAATTAACTATAACCTCGTAATTATCTAAGT 312276 29 100.0 37 ............................. AAAAATCTGGTAAACTATCTTCTATATTTCTCTCGAC 312342 29 100.0 37 ............................. TCGTAATAATACTCTTTGACTGCATACCAAACATCTT 312408 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 312475 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 356055-356281 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000002.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 356055 29 100.0 37 ............................. TCACAAGCCACAAACATAAAAGTGAAAGTATAAAGAA 356121 29 100.0 37 ............................. ATTATAAGTAACGAACAATTTTATTTTGTTCAATCTC 356187 29 100.0 37 ............................. TTAAGATTTTATTTAGCTCATTCTCAAAAATAATTTT 356253 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 190321-191277 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000001.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 190321 29 100.0 36 ............................. TAAAAAATTTCCGAATTATCCTCTTTCGTAATACCA 190386 29 100.0 37 ............................. ATTTTAAATCGTTATTTTGATTTTCTATAACAGTATC 190452 29 100.0 37 ............................. TCATCAAAGTATGCTAAATTTAATTCTTTTTCTGTTG 190518 29 100.0 38 ............................. GGAAGAAGAAATAAAATACAAAGAAAAAATAAAATCTC 190585 29 100.0 39 ............................. AATATAGCTATTGAAATAGATGCTACAGCTATATCTCTT 190653 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 190719 29 100.0 38 ............................. AAAATCCATCAACTCATTATTTTTTTCAAATCTCACAA 190786 29 100.0 37 ............................. ATGATAAACCCAATAGGATTGACACGTTACGACCGTG 190852 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 190918 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 190985 29 100.0 37 ............................. ATTTTGAATACTTGTATAATGTACATTTAGTTTATTT 191051 29 100.0 37 ............................. AATCTGAATGACATTGCAACACTTAAAGCAATTAAAT 191117 29 100.0 37 ............................. AGTGTTTAGTCGGCTCTTGCAGTGTTCTCTGTCGAGT 191183 29 100.0 37 ............................. TAGCTAGTTTGAGGAAATGCAATCTTTAAATTATTTA 191249 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGTAGATATTTCATAAGTTAATATTTATTGTTTGTATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACATATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTG # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [70.0-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 399530-400282 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000001.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 399530 29 100.0 37 ............................. TAATTTAAGGATTAGTTAGGTATTTATAACAAAAAAG 399596 29 100.0 37 ............................. GCTCCCAATTTGCTCCGTTTTTCAGTTCTGAATCAGT 399662 29 100.0 36 ............................. AAGGTTGTTAGTTCTAGTAGTGGAGATGCTGGAGAG 399727 29 100.0 36 ............................. CCACCTGAATTATAAGGGTATTTACCTTGTTCTAAA 399792 29 100.0 37 ............................. TATTTAGATAACAATCTTTTAAGTACTGTTTTAACTG 399858 29 100.0 37 ............................. GTCTTTGCATTTACAAGTCTTACCCTTTTACGTTCTT 399924 29 100.0 37 ............................. TATGTTTAAAATTCGTTTCTTTTTCTTCATATAAAAC 399990 29 100.0 38 ............................. TTGCAATACTTTTGATGCTTATTTTAGATTAAATTCAA 400057 29 100.0 38 ............................. AAGCTTCATCACCATATATCATCAAAGCTATTTTATTA 400124 29 100.0 35 ............................. ACTGCAGCTATAGAATTATAACTTGAAGGAACATT 400188 29 96.6 37 ............................T AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 400254 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 97.1 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTAAATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTTTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGATTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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: 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-75.0]%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 512871-513625 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000001.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 512871 29 100.0 36 ............................. TACAAAGAGTGCAGAAACAGTTTAAAAGGTCAAAAA 512936 29 100.0 36 ............................. TCTGTAACCGCTAACTCTTTTGCGTCTATATAAGTC 513001 29 100.0 37 ............................. TTATTTTATCTATATTCATATCTACAACCTTTAAAAA 513067 29 100.0 38 ............................. TCAACCGGCAAATCATAAGGAGGATTATTTTCTCCAAC 513134 29 100.0 36 ............................. TCGGCAATATTGTAAGTATTATTAGCACAACACTTA 513199 29 100.0 37 ............................. ATAGGAATGACTTTGCAACCATTAAATATAAAATTTA 513265 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 513332 29 100.0 37 ............................. AAAGAAATATGCGCACTTGATATACTTGGATATATAG 513398 29 100.0 37 ............................. CTATCAGAAAATAAATATAAACTATTTAAATATAATT 513464 29 100.0 37 ............................. CTTTTTGAGTATGAATATAAACATCGTAAATTGAATA 513530 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 513597 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 99.1 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGTATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTGCACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACATATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [68.3-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 606728-607083 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000001.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 606728 29 100.0 38 ............................. AAAATTAACTTGTTTTTCTTTTCTTTTACTAATTCAAG 606795 29 100.0 36 ............................. AATATCATGATTGCATTATTTTTAATTGAAGTCCAA 606860 29 93.1 36 G..............T............. AATATCTTTTGCAACATGTAAAGACTTCCCCGAACC 606925 29 96.6 37 ...............T............. GTGAATCTGTTAATTGTTTCTTGCTCTGCAATGTCTC 606991 29 100.0 36 ............................. TTTGCAATAGCTTGTTTCATAAAATATACACACTGA 607056 28 86.2 0 ...............T....A..-....A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 96.0 37 ATTTTATATTAACTAAGTGGTATGTAAAG # Left flank : ATTATATGTTATAATGATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAGTAGACTTTAACAGTTGCAATGTAAGGCATTGAGAGTGTATGATAAGTGTTATCAACTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : ATTAAAAATAATCAAAAAACACTTGCTTATGGTAGGTGTTTTTTTAATTGAAAGTATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGGTTATTTGGAGGAAAAGAACCATGCTGCATATGCGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAGTGAATATCTGTGCAATAATTGTTTTGTTGATTTTACAATATTCTCTAGTGAAAGATTAAAGATAACTAGTGCGATGCAAGTATTAGCAGACCACGAGGGAATAAGAAAGTTTATAAATTTTTCTAAGAAAAATAGAGAGCTATTAGAAAAATTTGTTGAGACAAATAGAATCAATAAATTCATATCAATTGATGAAAATAATAAATTTATTAAAATATCAGATATTCGTAAAGGTGGAGATATAATAGAAACCGTATATGCAACTGATGAAATTATAGAGTTTGAACTTTTAGAAGATGAAGA # 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: 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-76.7]%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 24680-26156 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000011.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 24680 29 100.0 37 ............................. AAATTTCTAAAAAACTAAAATTACGTTTAAACTCATT 24746 29 100.0 37 ............................. TTTTTCTGTAAAATATAGTTATTTCAACGTATATACT 24812 29 100.0 37 ............................. TATAAAATTCTAATTCTGATAGATATTTTCAATATAA 24878 29 100.0 37 ............................. TTTATTTATCTACTTGATAGAATTATATATCATAATT 24944 29 100.0 36 ............................. GTAATTGAAAGCAATATCATAATCTCTAACGTTTTC 25009 29 100.0 37 ............................. TATAAATAAATAAACAAAAAACAAAAACAATTATTTT 25075 29 100.0 36 ............................. ATAATTAACAGCACAAAAAGTAGAAATCGGAAGTAA 25140 29 100.0 37 ............................. CAACCAAGCAGTCGCAGAGTTTTCTTTCATATTAAAA 25206 29 100.0 38 ............................. AAGTCACACAACCCCCAAGCATTTAAAATTAGTTTAAG 25273 29 100.0 36 ............................. GTATATGTAATTTTTATAACTGATGGAGATAATTTT 25338 29 100.0 37 ............................. GAAGATATTTCTGTAAAAATCAATAAAAGATTAAAAG 25404 29 100.0 38 ............................. AGATATTGTTTAAATTCTCTGACTAGGAAAATTGATGG 25471 29 100.0 38 ............................. GAGGAATATCTTTAACAGTAATCAAATTTTTAACCCTA 25538 29 100.0 37 ............................. GCGATTAATTGGTCAATCTTAATATTTTGTTTCTCAT 25604 29 100.0 37 ............................. TCGATAATCTGATTAGTTTTCCAACCTGCCATGCCCG 25670 29 100.0 37 ............................. AAGCGAGGATTTAAAGAGTTAATAAAAAGAGATTTAA 25736 29 100.0 39 ............................. AAGACTGTCTTAAATAAAAAGAAAACAGAGCCACAACAG 25804 29 100.0 34 ............................. GTTCATCACTAGCAAAATCAGCTACTACTCTACC 25867 29 100.0 37 ............................. GAGCGTGTCGGAAACCCAAGTTCATTAAAATTAATAC 25933 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 25999 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 26064 29 79.3 35 ............TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 26128 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 32258-32948 **** Predicted by CRISPRDetect 2.4 *** >NZ_VINE01000009.1 Clostridioides difficile strain Gcol.A29 .cdiff_col_A29.9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 32258 29 100.0 37 ............................. CAAGAATTAAAAGATAACTATGATAAAAATTGTAAGG 32324 29 100.0 37 ............................. TTACTTATATTTGCTCTTTCTTTAAATTCCATTTTTT 32390 29 100.0 38 ............................. ATAGCTAGTCTACATTTTGTTCTATTCTTTTCTAAATT 32457 29 100.0 37 ............................. TTTTTCAGATATTTTCTTTTTCTCATAGAACTTTCTT 32523 29 100.0 36 ............................. GCTCTTGTCGCAGTTGCCCCTGAAATTATCGATGTT 32588 29 100.0 39 ............................. AAACACCAGACATCTGCTCTTGGGATATTTTCTGTTCTA 32656 29 100.0 38 ............................. CTCTCTGTATCAAGAAATTTCATTCTTACCACATCCTA 32723 29 96.6 37 ...........G................. CTATTGTAGTTGTACCTTTACCTCTCATTTTTGCTTT 32789 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 32855 29 86.2 36 .C.............CA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 32920 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], //