Array 1 278913-277044 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000002.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 278912 29 100.0 36 ............................. GCGGGCAAATTAACTTTTATAAGTTCTAGCAAAAGT 278847 29 100.0 37 ............................. TTTCGGCTCTTCTGTAATACTGTTTTTATCTATACTT 278781 29 100.0 37 ............................. AACTTTGTGCTTTTGTTAAATAAATTATCAATATCAG 278715 29 100.0 37 ............................. AATGTTACGGCAACATTCGAGGGCGACAGGATAATAA 278649 29 100.0 36 ............................. TTAAAATTTGGAGATGCGTCAGCTTTTACTAATCTA 278584 29 100.0 37 ............................. TATCTTGCCTGGAAGTTGTGAAACTGGAATTAATACA 278518 29 100.0 37 ............................. TTCCAATTAAATTCAAAACTATCACCTTTTTGACCTT 278452 29 100.0 37 ............................. CCGAAAAAATCACCTATACCGCTGAATCCATTTTTTA 278386 29 100.0 38 ............................. ATCTGTAACTTTTCTTATTATATCGTCTAATTTTTCTT 278319 29 100.0 40 ............................. CATCCTGTACAGTCGTTTCTTGCCATGCGGAACTTCATAT 278250 29 100.0 38 ............................. CCATTCGCAGAACTAGCAATAGGATTAAATAAAGCAGG 278183 29 100.0 37 ............................. TTGGTTGATATAGATATTAGTCCTATTATTTCTGCTT 278117 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 278051 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 277985 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 277920 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 277855 29 100.0 37 ............................. ATGAAGAATTTGCGAAACTAATAAGAAAAGATATTGA 277789 29 100.0 36 ............................. CTTTCTTTATCAAAGTAAGCTAAATTTAGTTCCTCC 277724 29 100.0 36 ............................. CGTCATTACTTTTTATTGCTTCCATTAAATTTGTTC 277659 29 100.0 36 ............................. ATCGCAAGATAGGCTAAATCTATCAAGGAGAGTTGA 277594 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACAAACAGTCTTACCGCAA 277528 29 100.0 36 ............................. TCTTGTGCTCCTTGCGCAATCAAGTTATAAGACTCT 277463 29 100.0 37 ............................. TCAGAACAAATTAAATATGTTTCGTTTTCCATGTAAG 277397 29 100.0 38 ............................. AGAACTTTTTTATATTAGAAGTACTTGACATGATTGCC 277330 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 277267 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 277201 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 277136 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 277072 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================== ================== 29 29 98.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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: 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 [17-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 241558-242514 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 241558 29 100.0 37 ............................. ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAAA 241624 29 100.0 37 ............................. GTGGCAGGGTCTAATGGTAAATTATCTATAGAATTTA 241690 29 100.0 37 ............................. AACTTTGTGCTTTTGTTAAATAAATTATCAATATCAG 241756 29 100.0 36 ............................. GGTAATTGGCTAACTGTATTGTAAATATTATTAAAA 241821 29 100.0 36 ............................. CTGTCTATTTTAATCTTGCAAGTTTTTCACTTATGA 241886 29 100.0 37 ............................. AATAAATTTTTAGCGTTGTAAGCTAATCCAGACAGCC 241952 29 100.0 38 ............................. TTTCCTCAACTTTTAGTCTTTCATCAAGCGCTTTTATT 242019 29 100.0 38 ............................. ACTCATTTAAACGATTTGTTTGGAGAAATTTGTTACGT 242086 29 100.0 37 ............................. TCAATTTACCGTTTTTTTCAAATCTCACAACATCAGA 242152 29 100.0 37 ............................. CTATCGGCTTCTTGAAAAGCCTCATCTGCTCTATTTA 242218 29 100.0 37 ............................. TTCATTAAATCCCCAACCGAATTATCTTTCAGCATTT 242284 29 100.0 39 ............................. CATGCTGATAAGAATCTCTATGAACTTCGGAGGGAACCG 242352 29 100.0 37 ............................. TTGGGTATTTTGCTAAAAATAAAGCTATTAAATTAGA 242418 29 96.6 39 .C........................... CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 242486 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 99.8 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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 : 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 [0-1] 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 [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 489596-490416 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 489596 29 100.0 37 ............................. CTATTTTAACACCTAGCTGTGTCCCATTCCAATTAAA 489662 29 100.0 37 ............................. CCACCTAGTTGAGTTGTTTCTTGATAATATAAGCCAC 489728 29 100.0 37 ............................. TTTTTTAGTAGTAAATCTCCATCTCTACCTGGTACAC 489794 29 100.0 37 ............................. GATTAAATGTTGTAGTTTTTTTGGTATAATCTAACTC 489860 29 100.0 37 ............................. CCAATTCTCTCGCATTTATATATGAACCTTTTAACTG 489926 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 489992 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 490058 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 490124 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 490190 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 490256 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 490323 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 490388 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACATAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAGGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 : 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: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 3 846047-846208 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 846047 29 100.0 37 ............................. CTGAAAATCTCTACAGCTTTGTCTTTTATACTTGCAA 846113 29 100.0 38 ............................. ATTTTAATTGTCTTAGTCTCTTGTATGTTAATTTCATT 846180 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ====================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAGCAATTCTCCTAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATAATTGTGTTAGATATGGATGAAAGTGATAATGTATATAAAAAATAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [0-1] 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 4 1173964-1173076 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1173963 29 100.0 38 ............................. AATCATGATTCCAATCATCATAACAATTAAATTTACTA 1173896 29 100.0 37 ............................. TACTGAAACCCAGCCATATACATATTTACATACTCCA 1173830 29 100.0 39 ............................. TCCATTCTTGCATCACTTGCTCCAGTAGTCATAACAACA 1173762 29 100.0 37 ............................. TTTTTTGTTTTTGCTTCATCTTTTTTATCTTTATTCA 1173696 29 100.0 37 ............................. AAAATTGCTGAAACAATAGTGATAAGAGAAGATGCTG 1173630 29 100.0 35 ............................. AGAGTTGAGGTTGAGTTGGAGGATATTATTTAAGG 1173566 29 100.0 36 ............................. TTTTTATTCTAAGAAACTTTTCAATTCTAGTTCTTC 1173501 29 100.0 37 ............................. TTTGAAAGTTGTAATATAATAGATTAAAAAACTAATT 1173435 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 1173369 29 96.6 37 ...............T............. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 1173303 29 96.6 38 ...............T............. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 1173236 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 1173170 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 1173104 29 93.1 0 .......G.......T............. | ========== ====== ====== ====== ============================= ======================================= ================== 14 29 97.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACCTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTAATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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: 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 [8-0] 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 5 1313503-1313015 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1313502 29 100.0 37 ............................. AATTGCTCGACTGTTTGTTGATAAACTTCTCTTAAAT 1313436 29 100.0 36 ............................. TCATTTGTATTAATTGAAATATAATCTTGTAATTTC 1313371 29 96.6 37 ......T...................... AGTCCTCCAAATTTATTTAAGACATCCACGAATTTGT 1313305 29 100.0 38 ............................. ATTGATGACTTTAGGAGTAAGCAGAGCTAATGTTACAC 1313238 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 1313172 29 86.2 36 ......T.........G...T.......G GGAACATAAGGTAAATCATAAGAAACTCAAACAAGA 1313107 29 82.8 35 A.....T.........G...T.......G ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 1313043 29 79.3 0 A.....T.........G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 93.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAGTAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGCGATAAATTGAAGTTTAACAGTTGCAATATAAGGTGTTGAGGGTGTATGATAAGTGTTATCAATTGCACTACTTATGATTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGGG # Right flank : TAAAAACGCTAAAAACACTTACTTAAAAAGTAGGTGTTTTTTATTGAAAGTAGGTGATTATAATGTAAAAATTTTACTAATATAGTATAATATTGTTAAAGAATATAATTTAGGGGGATATTATATTATGAAGAAAAAAGTATGTTTTTTATTTTCTATTCTTATAGTTATCTGTTTAGCTATTGTAGGATGTTCTAATTCAGAAAGTCCAGAGGAGAGTAGTAAAAATAATGAACCAAAAAAAGAAGAAAAAAAGGATAAAGAAGTAGTCATAGGAGAGAAAATTATTTCAGATAAAATGGAAATCACTATTAATAATATTGAATTCTCTTATGATGTTTTACCAAAGGTTAAGGAAAGTTTATATACACATTATCCTGCTGAGTCAGGCAAAGTATATATTGATATTGCTGCTGATATAAAAAATACTCAAAAACAAGAGTTAAATTGTTCAGATTTACTAACTATTGAAGCAAATTATAATGATGGGTATAAATATT # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.98, # 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 [15-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 6 1314534-1314106 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 1314533 30 96.7 36 G............................. GCTGAATCCTCAATTTTAGGGACTGTTCCTGTTACG 1314467 30 100.0 37 .............................. TTTTCTAAATTCTTCTGGTAATGTTTTTACTTTATTA 1314400 30 100.0 36 .............................. TTCATTGACCAAACATTTTGTTTACATCTAATCGAA 1314334 30 100.0 36 .............................. CAAACAAAAGAAGCACAAGAACGACTTAATGATTTG 1314268 30 96.7 36 G............................. GTTTTAGAAAAAGCTTTAAAAAGTTATGAAAACTAA 1314202 30 100.0 37 .............................. TCAGTTTTTCGTTTGATTGGCTCTATCTTTAAAAAAG 1314135 30 86.7 0 T.....................C.TA.... | ========== ====== ====== ====== ============================== ===================================== ================== 7 30 97.2 36 AGTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGAAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTGTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAGTAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGCGATAAATTGAAGTTTAACAGTTGCAATATAAGGTGTTG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : AGTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : GGTTTTAGATTAACTATATGGAATGTAAAT # 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:80.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 7 1405680-1405119 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000001.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1405679 29 100.0 37 ............................. TTTTTAGATTTAGAAAGTAGATTTGGAGTTGTTACAG 1405613 29 100.0 37 ............................. CACAAAAGCAGGTTTAAAAAAATCAAATATTATAGAA 1405547 29 100.0 39 ............................. GCGCAAACCAGGCATAAAATCTTTGCTCTGCTATGCCTT 1405479 29 100.0 37 ............................. TTTAAAATAAAATATATTTGCCTACCATCAACTGAAG 1405413 29 100.0 37 ............................. CTTCAAGAAGATGCTAGTTTAAGTGATATATCAACTA 1405347 29 100.0 38 ............................. TATGTAAAAAATAAAATAAATAAAAGTAACACTTTATA 1405280 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 1405214 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 1405147 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ======================================= ================== 9 29 97.7 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : AAAATGTTAATGAGATGTATGATAGGGATTTTGGAGATAATATAATAAAAACACTAGCACAGTCTATACAATCTATTTTACCAGATAATGCTGAACTTTATAAACTTGATGGGGACGAAATGGGTATTCTTGTTGATAATGTTGAAGAAAATGAAATTCTAACTCTATATAATCAAATACAGAATATGATTATACACCTTCAACTATGGAGAAAATATGGATTAAATATAACAATTTCTGCTGGTTGTGTAATATATCCAAAACATGGAGATACAGTAAAAGAACTTTATAAGTGTGCTAGTTACTCTTTACAATATGCGAAAGAGCATGGTAAAAACAGGCTTGTTTTTTTCTCCCAAGAAATATTAAAAAATAAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGATGGGAATGGG # 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 : 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 [6-0] 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 125703-126982 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILN01000007.1 Clostridioides difficile strain Gcol.A95 .cdiff_col_A95.7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 125703 29 100.0 37 ............................. TTTAAAATTATTTAGTTATACTAAACATTATATTATA 125769 29 100.0 36 ............................. ACAAAGAATACAAGTCCAACCCCTATTAAAAGTATT 125834 29 100.0 37 ............................. GTACAGGAGCAGGAACAGGAAAAAACACCTCTGAAGA 125900 29 100.0 36 ............................. ATTTCTGTCGAGTTGTTCAATCTGATAGTTGGACTT 125965 29 100.0 37 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGA 126031 29 100.0 37 ............................. TTAAAAATAAAGGGTTTAGAGAGTATATGTATAGAGT 126097 29 100.0 36 ............................. ACAACAGGAACATCAACTGGTGGGTCTATTGGAGGG 126162 29 100.0 37 ............................. AGCAAGATACTGCAAATATTTATATACACCAAACATT 126228 29 100.0 36 ............................. GAACATTTAAAACATCAAATACACGTTTAAAATCCC 126293 29 100.0 38 ............................. ACAGTAGGAATAGGGTCTACTGGAGGGTCAACAGGTGG 126360 29 100.0 37 ............................. CTAATAAGACTAATAACATCTGAATTATTTATATTTA 126426 29 100.0 38 ............................. TTGAAATTACTTACATATAGGTCTATTTAATTAATCAT 126493 29 100.0 37 ............................. TTGAAACTTACTACACCAGTTTTAGTAGTTCCAGCTA 126559 29 100.0 37 ............................. ACAGCAGTAGCAACACCCTCTTCAGCAGCAAAACAAG 126625 29 100.0 36 ............................. TATTTATTGCACCTTCACCATCAAGTGCAACATGTT 126690 29 100.0 37 ............................. CTGCAAATTGCTTTGATTCAGTTGAATTTTTAAATAC 126756 29 100.0 36 ............................. AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC 126821 29 100.0 38 ............................. TAAACTGTTGGTTCTACTGGTGTTTCTTCTTTATTTAA 126888 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 126954 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 20 29 98.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAATATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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 : 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-76.7]%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], //