Array 1 196878-198677 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000002.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 196878 29 100.0 36 ............................. TACGATTTGTGGGAAAAACAAGGCTTGTTGAGGGTA 196943 29 100.0 37 ............................. TTTTTCTTTTTTGAAATATATCTTATTCTTTAGGCAC 197009 29 100.0 37 ............................. GCAATCATTCCGACTAAGTACAATATTATAAAATTAG 197075 29 100.0 37 ............................. AATTGTATAGTAGATATTTTAAAAAATGGTAGTAAAG 197141 29 100.0 37 ............................. AGCCAAACCACGAAGGTATTAACTACTTCTCGAACAG 197207 29 100.0 36 ............................. GCAAGAGGTAAATCAAAACTAGGACTCTTAGAAGGA 197272 29 100.0 37 ............................. CTAGCAACAGCAAGAGTTGCAACAACATTAATAACTT 197338 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 197405 29 100.0 38 ............................. TAATTAGTGGTGTTATAACTTCAATTTTTTTGTTTTGC 197472 29 100.0 37 ............................. TTAATATAATAAACTCTTTAGGAAAAAATTCAGTCAG 197538 29 100.0 36 ............................. CGCCATTACTATCTTCACAATGACACCCTTCGGTTG 197603 29 100.0 37 ............................. TTAGTCATTCCTGTATCTATAGCCTCTTTAAACTCAG 197669 29 100.0 36 ............................. GATTTTTCTGCTTCGACTGGTGTTATTGAGACTTTT 197734 29 100.0 37 ............................. TGTTTTAAATCCTGTTTATTAAGCTATTAAACATATT 197800 29 100.0 36 ............................. AAAGCATCAGTTTTAACTGAAGTAAGTGCAGTAGTC 197865 29 100.0 38 ............................. CACAACAAAAGTATTTACAATTTCAGAAACAGGTAAAA 197932 29 100.0 36 ............................. CCATAATAGCGATTCCATACGGAGCGACAGTGCTTA 197997 29 100.0 36 ............................. CTTGCCGTATAGATTGGTGTAGGTATATATATACTT 198062 29 100.0 37 ............................. CATTTACTTCATAATTTATGATTATAATATCATATTT 198128 29 100.0 36 ............................. AAGTGAAGTTAAAGAATGCTTGAAAAGTGGTACATT 198193 29 100.0 37 ............................. ATCAATTATTTATGTTATAATAATATTTGTATATAAA 198259 29 100.0 34 ............................. AAAACACCAGAAAAAATAATTATTACTGTTTCAT 198322 29 100.0 37 ............................. ACGATTCGCTAAAGATTTTTTAAAGCGAATGGATAAT 198388 29 100.0 37 ............................. TGACTTTCATACGCTTTTTTATCAGCTTCTGACATAA 198454 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 198520 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 198585 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 198649 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 28 29 97.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAGCAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAGTATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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: 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 [75.0-78.3]%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 72516-71436 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000003.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 72515 29 100.0 36 ............................. TGCTCTTTAAAATTATCAAAATCTAAATTCACTGGA 72450 29 100.0 37 ............................. TTTATTACATTATCAGCATTTCCTAAACTAAATAAAT 72384 29 100.0 37 ............................. CTAAAGTCCAAACACCTTCCAATTTTCCTGTAGGAAA 72318 29 100.0 37 ............................. TCAAAATTATTTAGTTATACTAAACATTATATTATAT 72252 29 100.0 36 ............................. GCTATAGGAATAGCAATAGCTGGTGTTGTTGGAGGA 72187 29 100.0 36 ............................. ACTTACATTTAATGGTAGGGTGTGCCGAGCGTTTAG 72122 29 100.0 37 ............................. TTTTCTAAATACTTCTTGTTGTATTTCTAAGATTTCT 72056 29 100.0 37 ............................. ATTGTTTCTTTAACGCTTCCCGCGTGAGAGTTCGCAC 71990 29 100.0 37 ............................. TGAAAAGTAGCATGTTCTTTAACAAAAGCATCTAATT 71924 29 100.0 37 ............................. TCAGAAATTAGATTTTCTTATACAGAAATAGAACTTT 71858 29 100.0 37 ............................. TTAATTTTATAAAAAGCTAAAAATGGGTTTATATATA 71792 29 100.0 37 ............................. ACGCAACATCCTGTTGCATTGCTAAGAGTTCAGAATC 71726 29 100.0 36 ............................. AATATGGAATTAAACAAATGCTTTAATGATTTATTG 71661 29 100.0 37 ............................. ATTGCGATTTCCATTATGGGTGTTTTTTATGTCTGGG 71595 29 100.0 37 ............................. TACAATTCCAGCGATTTTTAATCAAGCAAAAGCAACT 71529 29 100.0 36 ............................. TCTTCATATTTATTCATGTATTCAATGATAGCATCT 71464 29 89.7 0 .......................GC.G.. | ========== ====== ====== ====== ============================= ===================================== ================== 17 29 99.4 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : TAAATTAAACTATATTAGTTATAAAATGCCATGCTTATATTATGTGTTTGAATTAAACTAAATTAGTTGAGATATTAAGAATTAAAATGTTAATATAAGTAAGTTATATTAAAATATATAAAAATCATATGATAATATTTATATATTTTAGATAATGAAAAAACTAATTAAGGACATAGACATGTTTTTAATAGTTTGTATTTTGAGTATAAAAAGATATTGATTGTTTAATTGATATCTTTTTATGTTGATGTATTATATCAAAATGTATGTAATAATTCTATTTAGATATGTTTTTAAATTTATTATGTTTTAAAAATAATATTTAGTAGTTTTGGTTTTGCAGTGAGCGAAAAAATTGCATAAGTGGCTGTAAATTAGTGATGGCAAAGATTACAACTGTATTTTTGATTATACCAAAAAACACTACTTAGCGCTCACTGCAAATTATTCATTTTAATAATACTATAAGTATTGGAATTACTGTAGTTTTATTTGGG # Right flank : ATACCAGAAAGTATATATAAAATTATGTGTAAACTATATTGTTATGAGTACAAATAATATTTACCTATTCATTAAAAAACTTAACTAAGAATTTGATTTATATTATTGAAGTATCAATAATTTTGGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAACAATAAAAAATAACCAAAAAAATCAGTCTAATATCATAACTAAATAGCTATATATCTACATTTACAAAAACCAACAAAACAATCAAATAACCACTTATAGACTCCCCTCATCTCCAACATTGAAATCCACGAATATCTATATCCAATTGGATATAGGTATTTTTATACATTTTTAGTTTAAATATTATTGATAAATACATTTAAAAAGTTTTAACCTAAAGTGAAGAATCTAAATAAAAATAAAATATTAGGAGAGGTTATCATTACAATAACAGCTTGTGACGATGAAAAAGAAATACAAATCGTAATAAAAAATCAAGTTGATAAT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTAAATTACACTAAGTTAGTTATAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-0.30,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [81.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 195785-196404 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 195785 29 100.0 36 ............................. ATTTTGCACAAACGGCAATTATGAGCGAAGAAATAA 195850 29 100.0 37 ............................. ACAGGTTGTAGATGCTCTAACACAAGGAAATCCAGCT 195916 29 100.0 37 ............................. CTTTATTTAGAAATAAGTAAAAGGCTTAACGACTAGA 195982 29 100.0 38 ............................. AAGACATGTTGCATATGTACAAAAGAAGTTGAGTATGA 196049 29 100.0 36 ............................. TTTTAATTTTTTTTCTTTTAAATCTGCAAAAACTGC 196114 29 100.0 36 ............................. CTGGGTGTTTCTGTTTTTTCAAGAGCAGTTGACTTA 196179 29 100.0 37 ............................. ATTATTACTTAACATAATCCTTGCAATTCTAAGAATT 196245 29 100.0 37 ............................. CCGCTATAGGCTTCTTCACAATAAAGACTTTCACAAT 196311 29 96.6 36 ............................A AACAAAAAAGATACATCTGTAACTAATTTTTATACT 196376 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 99.3 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAATGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAAAATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%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 402009-402429 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 402009 29 100.0 37 ............................. AAGTTCATCAATATAACTACAGAAGGTTTTGTAAATG 402075 29 100.0 35 ............................. ATTAAAATCAATAATCAGCACAACAGGCGTATAGA 402139 29 100.0 37 ............................. ATTGATATACCCCAACAAATTACACCTTGTAATACTG 402205 29 100.0 36 ............................. ATAGTTTTAGTTTCAAGAAGCTCAAATTCTATGCTC 402270 29 100.0 37 ............................. GATAATTCCTCTGATGATATTTTAGAAACAAATTCTT 402336 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 402402 28 72.4 0 A.....C.........AAT....-AG... | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 95.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATACCCAGTTTATTTTGGG # Right flank : TAAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTATTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTA # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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:80.00%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: NA [68.3-75.0]%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], // Array 3 512707-513331 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 512707 29 100.0 38 ............................. ACAAAGAATACAAGCCCTACACCAATCAGAAGTATTAC 512774 29 100.0 37 ............................. CCAACTAAGTCTCCTGTTTTATCTTTTTCCTCATATT 512840 29 100.0 37 ............................. GACCTTTCTGTTTATTTTAGAAATCGTTCTGATAGTG 512906 29 100.0 37 ............................. GGATATTACTTGCGTCTATTCCTTCGAGTTTTTGAGA 512972 29 100.0 37 ............................. CTTTATTCATGTACACATCATCTAAATTGTAAACATG 513038 29 100.0 37 ............................. CACATATCACCTCTATCTTTTACTTTTTAAATGTATT 513104 29 100.0 37 ............................. TTTTTAGATTTAGAAAGTAGATTTGGAGTTGTTACAG 513170 29 100.0 37 ............................. AGGATTCTGCTTACACTTAATAGAAAAAACAGTTCGC 513236 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 513303 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACACTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAATAGGGGATATCTTTTTTATGATGGGAATGG # 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 : 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%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 603529-603690 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 603529 30 100.0 35 .............................. GAAAATGGCAAAGGAAGCTCTAGGACTACATCTAT 603594 30 100.0 37 .............................. TTACTGCATTTATACCATCTACACCTTTTATTTTATT 603661 30 90.0 0 .....................C.TA..... | ========== ====== ====== ====== ============================== ===================================== ================== 3 30 96.7 36 GTTTTAGATTAACTATATGGAATGTAAATT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGTACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTCTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTG # Questionable array : NO Score: 5.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : GTTTTAGATTAACTATATGGAATGTAAATT # 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: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: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 5 604292-605241 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 604292 29 100.0 35 ............................. TCTCCTGACTTCATATAACGTTTATACTCACATTA 604356 29 100.0 37 ............................. AATCCAAATTTCAGTAAAATAGGTGTTGGAGTAGCAC 604422 29 100.0 38 ............................. AAATTATTAGCACATACTTCTGCTAACTTCCCCATCAC 604489 29 100.0 36 ............................. ACGAGAACCATCCAAAACAATAGGTTGTATACAAGG 604554 29 100.0 36 ............................. AACGTATAAATTCCCTTCTATTATATATCCATCACC 604619 29 100.0 39 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAAT 604687 29 100.0 37 ............................. TTTGTTGTTGTACAAGGGAATGTAACTAAAGATGTAA 604753 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 604819 29 100.0 38 ............................. ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 604886 29 100.0 37 ............................. CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 604952 29 100.0 37 ............................. TGAGGTTTTTCACCTACACCACTTTTTTGGTCAGTAC 605018 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 605084 29 86.2 36 ......T.........G...T.......G GGAACATAAGGTAAATCATAAGAAACTCCAACAAGA 605149 29 82.8 35 A.....T.........G...T.......G ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 605213 29 79.3 0 A.....T.........G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 96.6 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGATGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTTGGTCGGTTGGGTAAAATAGTTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGTCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAA # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 [0-15] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 6 751899-753637 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 751899 29 100.0 35 ............................. TCCTCTTCCATTTAGTTTCTTATTATGTGTCTCTA 751963 29 100.0 38 ............................. GAATATTTTAGCGCGTCGACTATTGATACACCTTTATA 752030 29 100.0 37 ............................. TATAATTGATTATATGAGTTCTAAGTTATCATCTATA 752096 29 100.0 36 ............................. TATAGAACGTAACTATTTCAGTCTCTTTACTTTGCA 752161 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 752228 29 100.0 38 ............................. AACATTGCAACACCAGCTTGCTCGCGTTGAATAGGGTC 752295 29 100.0 38 ............................. GAAGCACACTTACAAGTAAGATAAAAGACCCTGGTACA 752362 29 100.0 36 ............................. TTTAAGAATTATCTTGTACTTTTTTAGTAGAAGAAA 752427 29 100.0 37 ............................. TACTGAAAACCAGCCATATACATACCCACATACTCCA 752493 29 100.0 39 ............................. TCCATTCTTGCATCACTTGCTCCAGTAGTCATAACAACA 752561 29 100.0 38 ............................. CATTATTGTTGCTGAATAAATCCACTTCTCATTCTCAA 752628 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 752695 29 100.0 37 ............................. TTTTTTGTTTTTGCTTCATCTTTTTTATCTTTATTCA 752761 29 100.0 37 ............................. AAAATTGCTGAAACAATAGTGATAAGAGAAGATGCTG 752827 29 100.0 35 ............................. AGAGTTGAGGTTGAGTTGGAGGATATTATTTAAGG 752891 29 100.0 36 ............................. TTTTTATTCTAAGAAACTTTTCAATTCTAGTTCTTC 752956 29 100.0 37 ............................. TTTGAAAGTTGTAATATAATAGATTAAAAAACTAATT 753022 29 100.0 36 ............................. GCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 753087 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 753148 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 753213 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 753278 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 753344 29 100.0 37 ............................. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 753410 29 93.1 38 ...............T.C........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 753477 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 753543 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 753609 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 27 29 98.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATGTAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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 : 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 [0-9] 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 7 1068641-1068481 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1068640 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 1068575 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 1068509 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTACAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGGGCAAACACATCATCTCTAC # 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:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 8 1115721-1114252 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1115720 29 100.0 37 ............................. TCAAAATCATTTAGTATTGGTGTATCGCTATTCTTAT 1115654 29 100.0 36 ............................. GAAATAATAAATAGCATTGTCGAATGGTTTGCAAGC 1115589 29 100.0 36 ............................. AGATATGTCAGTTTTAAATCAAAATGATATTCAACC 1115524 29 100.0 37 ............................. CTGGTATAGTTGTATTTGGTGCTAGTTTTGGAGTTGT 1115458 29 100.0 38 ............................. TGTGCCTTATTTCTTCTCTCTGAATATATACATCATCA 1115391 29 100.0 37 ............................. ATATTGCAGATATTGGACTTGGCATGCTAGAACCTTT 1115325 29 100.0 37 ............................. CGTTCTTGTTCATTTTGCATTGTTTCTAAAAAAGAAG 1115259 29 100.0 36 ............................. CCTTTTATAACTTCATTAGCATTTATATTCCATTCG 1115194 29 100.0 37 ............................. GTACATCAGAAAATCTATTACCTAAGAGATATATTTT 1115128 29 100.0 38 ............................. TTTTTTATCGTGGTAATAAATTATCTCTATTTAAAATA 1115061 29 100.0 36 ............................. CGCCTTTAGCATTTGCTTGTTGCTCTTTTTCTATTT 1114996 29 100.0 36 ............................. GAAAAAAGCGATATCTTAGGGTTTGACGAACTAGCT 1114931 29 100.0 37 ............................. CCAATCATATAAAAATAGTAGGTTATTTTTTTTAATC 1114865 29 100.0 37 ............................. TGACCTAACCTAACAATGTATTGATTTCCTCCACCTA 1114799 29 100.0 37 ............................. TTCCAAAATAAAGCTTTAGCATTCTTTGGTTTTATGA 1114733 29 100.0 37 ............................. TTGAATCACTAGTTTTTAAAAATTCTTTGTCTAAAGT 1114667 29 100.0 36 ............................. AATTTATATTTAAAATTATACACTAGACTTCTAAAA 1114602 29 100.0 37 ............................. GAGGTAAAAACTGTTCATGGAAGTGACATGGATACAG 1114536 29 100.0 37 ............................. GTTCTTGAAAGCGAAATAGCGAAACTATTAGCGGAAG 1114470 29 100.0 36 ............................. TACTCTCCGTATTCGTCATCAATTCTATCTTGAATA 1114405 29 96.6 37 ............................A TGATAATAAGACTGAAAATAGTGCGAGTATTTCATTA 1114339 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [1114282] 1114281 29 69.0 0 AC........T.A....CAT.T.C..... | A [1114266] ========== ====== ====== ====== ============================= ====================================== ================== 23 29 98.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-75.0]%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 9 1413139-1411992 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1413138 29 100.0 35 ............................. TAAAGAATAATCCTTACTAGGAATACGAGACAAAA 1413074 29 100.0 37 ............................. ACTGCAGATATCGAGTTATAACTTGAAGGAACGCTTA 1413008 29 100.0 37 ............................. TAAATAAAATTTTAAAGCACCTTCATAGATCTTTTCA 1412942 29 100.0 37 ............................. AATGCTTATTTAGCAAGCCTTTACTGGGATAGTGAAA 1412876 29 100.0 38 ............................. CCAGTATTATTCCAAGTATGAGAAACAGCATCTGACTC 1412809 29 100.0 37 ............................. AAAATTTTTAAAAAAATATCACGTTCTTTTTTTCTAA 1412743 29 100.0 36 ............................. TCCTTTTTATCTTCGAAAATAAGGTTGGTATACTGC 1412678 29 100.0 37 ............................. TTTTCTCCACCTCATTATTATATTTATAATATTATAA 1412612 29 100.0 38 ............................. GGAGAAGGTTATTTTAATAAATATACTTCAAACTTAAG 1412545 29 100.0 37 ............................. ATGTTATAGTTTGAATATATTCAGTATCTGTCTTATA 1412479 29 100.0 38 ............................. TTATTTCTTTATCTATTTTTTCATATGCTTTATTTCTT 1412412 29 100.0 37 ............................. TCTGCTACAAGATTTGCAATAGCTCCTTTTAGTACTG 1412346 29 100.0 36 ............................. AAATGTCTTTCACTCGAAAGCGCAATAACATCCCTG 1412281 29 100.0 36 ............................. GACTGAGTGTCCAACTTGTAAAAGACCTCTTGACTG 1412216 29 100.0 37 ............................. ATTCGTGTAAATGAGTGCAATAATAGCATGTACAATA 1412150 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 1412085 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 1412020 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCCAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCCCTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGATGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGCGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] 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: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 10 1660070-1659711 **** Predicted by CRISPRDetect 2.4 *** >NZ_VILJ01000001.1 Clostridioides difficile strain Gcol.A111 .cdiff_col_A111.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1660069 29 100.0 36 ............................. ATCTAACATACTTTCTTTAGAAACGAAGTATAAAAA 1660004 29 100.0 37 ............................. CTTAGACTATACCATTTCCCTTGCCATTTTTTATGAT 1659938 29 100.0 37 ............................. TTCTTCTATAAGCTTCTTTTGTATCGTAAACATATCT 1659872 29 100.0 37 ............................. GCGTTAACCGTTTTAACTCCAAGCGTTTTAGATATAA 1659806 29 100.0 38 ............................. TTGTTTAGGTCAAGTCTAATTTGACGTATTAAAGTATA 1659739 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGACAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGACAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGATTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGCAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //