Array 1 160398-158462 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000086.1 Clostridioides difficile strain RA09-70 LOCUS_86, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 160397 29 100.0 37 ............................. CTGAATATCCCCTTAAACCTAAAGTCTAAACTTGGCT 160331 29 100.0 38 ............................. GTGTCTAAAATTTCGCCTATCGCAATCGAACTTTCTAC 160264 29 100.0 37 ............................. GTGATTTCTGATAGCACTTCTAAATTAATTGGTGCGA 160198 29 100.0 37 ............................. TTTTTTGTTTTAGTTTCTACCTCTTTTTTGTCTTTAC 160132 29 100.0 37 ............................. GAAATTGATGTTGTGGCAAAAAGCATTCATAGAAGTA 160066 29 100.0 36 ............................. GCTTATAATGGGACAGAAATTGACGCAAGGGAAAAA 160001 29 100.0 35 ............................. ATGTTCACCCCCTTCCTTTTTGGCAATAAAAAAAG 159937 29 100.0 37 ............................. TCTAATTTTCTTGCATAACTCATAAATTCAGTTACAT 159871 29 100.0 36 ............................. CAATGAAATTCACAATCGATTTGGTAGTGCTGCATT 159806 29 100.0 37 ............................. TAGCGCATATCTCTGCTAATTTTCCCATTACTTCAAC 159740 29 100.0 38 ............................. GAAACGAATCAAACAGCAAATGCTTGGTCTATGGACTA 159673 29 100.0 37 ............................. ATTTGATGAAAATCAAAACTAATAGTTGTTTTTTTAC 159607 29 100.0 37 ............................. GAATTAAGATGTGGAAGAGTGCAGGATATAAAGCTAA 159541 29 100.0 37 ............................. TAGATGCACCATTGCCAGTTAATACAGGCAAAGAAAA 159475 29 100.0 37 ............................. TTCCACAAACCTCCTTTTATTTTCCTTTAAATATATT 159409 29 100.0 37 ............................. GATATAAAAAGCGATTGTCAAGTTAAAAGACTTTCAG 159343 29 100.0 37 ............................. ATGTACCTTTTATGTTCTCCAATCGAATTGAAATATT 159277 29 100.0 37 ............................. TTAGCAGAATTAGCTTTACCTGCGATAAAGTTATTTA 159211 29 100.0 37 ............................. CAAGAATCAAGTATTGAATCAAAAACAATAAAAAAAT 159145 29 100.0 36 ............................. GCGATTGCAAAACATAAACAAACAGGAGCTACAGAA 159080 29 100.0 37 ............................. GAGAAAATTAAAGAAATAGGTTTAAATGTAGTTAAAG 159014 29 100.0 37 ............................. GATTTCAAAGGGCAACTTTTTAGAATTTATTATATAT 158948 29 100.0 37 ............................. CGAATTTGCATCTAAGCATTTTTCACAGATTTTAATA 158882 29 100.0 34 ............................. AATCCTAGTCCAGTTCCTTCTGTTAAATTAGATA 158819 29 100.0 36 ............................. CCTCGAAAGTGAAGTAGCTGCAAGCGTGATAGCTCG 158754 29 100.0 37 ............................. ATATTTTGGAGTATCTGAAAATGATGTTGATGTCATA 158688 29 100.0 37 ............................. TTTGGAGAAAAAACTAACATGGTTTATTGTGCCTTAA 158622 29 100.0 37 ............................. ATTAGTTTATTTACTGCTGTGACTTATTGGTATGGTG 158556 29 96.6 37 ............................T AATATAACTTCTCTTACATTATCAATATTAACCTTAG 158490 29 86.2 0 .............C..A.C....C..... | ========== ====== ====== ====== ============================= ====================================== ================== 30 29 99.4 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : ATTTTATCAATGATGAAAAGTATAAAGTTTTAAAGGTATGGTGGTAGAGAATGTTTGTTATTGTTACTTATGATGTTGTTGAAGCAAGATCATTAAATCGGATTAGAAAAATACTTAGAAAATATTTAACTTGGACTCAGAATTCTGTTTTTGAAGGAGATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAAAGTTATTGATAATAGTGAAGATTCGATTTATGTTTATGAAATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGTATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGCATATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCACATTTTGATGTTTTTATTGAATTATAATTGCTTGAGTGCAGTATTTTCAATGTATTCAATTACACCTATTTTGGG # Right flank : AAAATACACTTACCTATAAATATGATAAAAATCAACACAAAAATGGGGTGAAACAAAATTTATGATAAGGAAATCAAATAACAAAGACATAAATAAAATCATGGAAATATGGGAAGAAAGTACAAAAAAAGCACATGACTTTATAAGTAAAGAATACTGGAAAAATAACTATAATACTGTCAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGAAGATGAAATAAAAGGATTTATAAGTATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAACCCCAAATACCAAAATCTAGGTATAGGAGGTAAACTTTTAGATTATGTAACTAAAAAATATAAAAAGCTAAGCTTAGCAGTGTACAAAGATAATAAAAAAGCAGTTGTATTTTATAATAAAAAAGGTTTTAATATATTAAAAGAGCAAGTAAATGAAGACTCTGGATTTAAAGAATACATAATGGAATATAGTAAATAACATGAGTATA # 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 : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] 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 [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 7497-7857 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000048.1 Clostridioides difficile strain RA09-70 LOCUS_48, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 7497 30 100.0 35 .............................. TTTTTTATTGTTACAACCTTACCAACTTCTCCCCA 7562 30 100.0 36 .............................. AAAATTATTTAGCGTTATATTGTTGCATAAAACCAG 7628 30 100.0 37 .............................. TATACTTAAAAACTTCATAATATGTACTATCATTAAT 7695 30 100.0 35 .............................. GTAGCCATATCATAACATTTTGTATTGCTGCCACT 7760 30 100.0 36 .............................. CTAAACCTCACACTTTGCAAAGCTCCACTTATTTTT 7826 30 83.3 0 ...A...........A......AAA..... | AA [7848] ========== ====== ====== ====== ============================== ===================================== ================== 6 30 97.2 36 GTTGAAGAATAACATGGGATGTTTTTAAAT # Left flank : GTTTAGTTTTGAGGGGGATTAATACAATGCGTGAAAGTTTACTTAATAAATATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTATAAGTACATAAAAGTGCTTTATCTTCCAAAATATGCTATAATTGTAGTATCAAATATATAGGGTGATTACGCATCCTAAGTGTGAGATTATCCCAAGCAATTGGAATTGATACTCACAAAGATGATTACTAAATAAAGTAATAATCACCGTCCCAATAAACATTGGGTAAAAACATCTAAAATTTAAAAACACTTGGGATAAATTTGATTAATGCTAGTATTTACAATGGTTATGTTGTTTTATTTTATTTTATTTAAGAATGTGCATTTTTAAGTG # Right flank : TATTTATAAAAATACTAAAGAACACTTACTAATGTAGGTGTTTTTTTAATGAAAGGATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGGTTATTTAGAGGTAAAGAACCATGTTGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATCTGTGCAATAATTGCTTTGTTGATTTTACAATATTCTCTAGCGAAAGATTAAAAACAACTAGTGCAATGCAAGTATTAGCAGACCATGAGGGAATAAGAAAGTTTATAAATTTTTCTAAGAAAAATAGAGAACTATTAGAAAAATTTGTTGAGACAAATAAAATTAATAAATTCATATCAATTGATGAAAATAATAAATTTATTAAAATATCAGATATTCGTAAAGGCGGAGATATAATAGAAACCGTATATGCAACTGATGAAATTATAGAGTTTGAACTTTTAGAAGATGAAG # 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 : GTTGAAGAATAACATGGGATGTTTTTAAAT # 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:73.33%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-0.40,-0.90] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [80.0-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 4976-5860 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000047.1 Clostridioides difficile strain RA09-70 LOCUS_47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 4976 29 100.0 37 ............................. TAGCTGTCGAACTATTCATTAGTGTTTCAGCTATCTT 5042 29 100.0 40 ............................. AAAAAATTCGCAGGGAAAAACTTTAAAGCAACTTGCGCTA 5111 29 100.0 37 ............................. TCGTTAGGGATTGTTAAAAAATGGGACTATTTAAGAG 5177 29 100.0 37 ............................. AAAAGGAAGGGGGTGAACATATGGAATTTGTAGAACC 5243 29 100.0 35 ............................. GTTGATTTAGCTGCCATATCTATCTTTTCAGCTTC 5307 29 100.0 38 ............................. TGGGCAGGAAAAAATTATTCTGAAAGTATATGGTCAAA 5374 29 100.0 37 ............................. GTATAGCATATTATCTGGCTTTTAAAGATGTTAAAGT 5440 29 100.0 39 ............................. AAATGGGAACATGGTCAAAACTCAAACTGCATTAATAAA 5508 29 100.0 37 ............................. ATAGAAATTGAAGAAGATGAATCTTTCTTTGACACAA 5574 29 93.1 36 ......T.............T........ TATACTTCCTAATGCAATCAAATAAGTACCTAAAAT 5639 29 89.7 34 ......T.............T.......G GGTACTAAAGGTACACATTCTTTAGAGTCTACAG 5702 29 79.3 36 A.....T.....A.......T...G...G GTTGATGATAAAGGTAATTTACTATTTACATCTATT 5767 29 82.8 36 A.....T........A....T.......G ACCATAGAGCCTACATACTTAAATGTTTCACCCATT 5832 29 79.3 0 A.....T..............T.CA...C | ========== ====== ====== ====== ============================= ======================================== ================== 14 29 94.6 37 GTTTTAGATTAACTATGTGGAATGTAAAT # Left flank : TTATATGTTATAATAATTATAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGATTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATATAAATAGTTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGAAATATAAGGTGTTGAGGGTGTGTGATAAGTGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGAG # Right flank : CTAAATAAACAAAGAAAGCACTTACTTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTGAAATAATTAGAAAAAATTGGAATAAGTTATTGACTTTTGTTGCTACATAAATTATAATATATTTGTAGCAACAAAAGTGAGGTGAAATAGATGCCACAAAAAAAGATGGGTCGTCCAACAGAAAGTGTAAAAGATACTATGATTAGAGTAAGAGCTGACAAAGATACTATTGATAAGTTAGATGAATGTGTAAATTTATTAGATAGTAATCGTTCTGAAATAATAAGAAAAGGTATAGACAAAATATATGATGACCTAAAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTAAACCATAAGAAGTAATCTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATAACTTACAAATATTTAAAAATGAAGATTT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.73, 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 : GTTTTAGATTAACTATGTGGAATGTAAAT # 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 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 [0-22] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-68.3]%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 9329-9686 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000047.1 Clostridioides difficile strain RA09-70 LOCUS_47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 9329 29 86.2 37 .AA............A............G ACAACAGCACCTACTTCCCCAAATAAAACTCCTCCAG 9395 29 96.6 36 .............A............... GAAAATGTGGAAGAAAGTTTTAAAATTCTAAAATTT 9460 29 93.1 37 .C...........A............... TTTGCACGCATTAATGCCGCTGCTTGAATATTAGTCA 9526 29 100.0 38 ............................. TGTCTTATTTTGTTATTAAAGTTTTCTTGTTCATTTGC 9593 29 96.6 37 ............................G GAAGATGAAGAAGACAATAAGCGTTTAGCAATGGAGG 9659 28 86.2 0 ....................-.CT....A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 93.1 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CATTTCAAGCAGTTAAACAAATTATAAGAAAGCTTGATATTAAAGAAGATGAAATGAAAACAGTACTAGAAACCAACGGTTCTTGGACTGGTACTGTAACCAAATATTCTAATAAGGTTACAGAAAAAGTAAAAGAGTGGTTGAAAGAAAATAATAATCCCATTTCTGTTAAAGGAGACAAGAAAAACTATTATATATTGTATAAAAATAATTAGATTTTAGTTTTATTTTGAGGGGGATTAATAAAATGCGTGAGAATTTACTTAATGAATATAATTTAAAAACTGATGAAGATATAGAGTATTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTGAGAGAAATACTTAGAGAGCAACAAGAAAGGGAAAATAATTAAATAAATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTGTTTGTTAAAAAATGGTATAATAGAAGTAGG # Right flank : ATTAAAAACACTAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTGATATAGTATAATATTGTTAAAGAATATCATTTAGTGGGATATTATATTATGAAGAAAAAAGTATGTTTTTTATTTTCTATTCTTATAGTTATCTGTTTAGCTATTGTAGGATGTTCTAATTCAGAAAGTCCAGAGGATAGTAGTAAAAATAATGAACCAAAAAAAGAAGAAAAAAAGGATAAAGAAGTAGTCATAGGAGAGAAAATTATTTCAGATAAAATGGAAATCACTATTAATAATATTGAATTCTCTTATGATGTTTTACCAAAAGTTAAGGAAAGTTTATATACACATTATCCTGCTGAGTCAGGCAAAGTACATATTGATATTGTTGCTGATATAAAAAATATCCAAAAACAAGAATTAAATTGTTCAGATTTACTAACTATTGAAGCAGATTATAATGGTGGGTATAAAT # Questionable array : NO Score: 3.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 43753-46279 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000059.1 Clostridioides difficile strain RA09-70 LOCUS_59, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 43753 29 100.0 38 ............................. TTTTTAAGTACATTAAACATTTCTTCTGCACTATGACC 43820 29 100.0 36 ............................. TTTCTTCTTCGTATTGTTTTTTGAATGCTTCTGTTA 43885 29 100.0 37 ............................. GGTAAAGTGTCTGGAAACTCTGAATCATCTACTTTGA 43951 29 100.0 37 ............................. TAAGTCCATCCGCAGCTTTTTTTATTCCATCTGCTAC 44017 29 100.0 37 ............................. GCTTATAATGGGACAGAAATTGACGCAAGGGAAAAAG 44083 29 100.0 37 ............................. GCTTTTTGCTCTGCTTCTATTTGTTTGTCTATTTCGT 44149 29 100.0 37 ............................. TTTATTATTTTTCTGCATTTTTTCAATTCTTCATCTA 44215 29 100.0 36 ............................. TTCAGTACCATCCCACACGTATAAATCAATTTGATT 44280 29 100.0 36 ............................. ATAAGTGAACTTGTTCCAGTTGTCAAATGGATAGGT 44345 29 100.0 36 ............................. ATGGAAAAGAAAAAATATTTAGACCGAACATAAAAG 44410 29 100.0 36 ............................. TGGGATGTCTATAGTTTGTTTATTGGATTTGATGTT 44475 29 100.0 35 ............................. GATTTTAATCTGCCTCTTGCTGGATTTGAATTTAA 44539 29 100.0 37 ............................. AGAATAAGCGCACGCTCTTCTAATGTTAAATCAGCAA 44605 29 100.0 36 ............................. TGTTCTCTATTTTAGATAAAATAGCGTCAAATCCTT 44670 29 100.0 38 ............................. ATTAGCCGTTTTGGTAAAAACGTATCAGATAATACAAA 44737 29 100.0 37 ............................. CGAAGTACGCTTTAAATGTACGACTATACTTTCTTAT 44803 29 100.0 38 ............................. TCATCAATTTTACAAGGTATTTTATGTTGGGGAGTAGC 44870 29 100.0 37 ............................. AGCAATAGGTCAAAGAATAAAAATAGCTAGGATAAAA 44936 29 100.0 38 ............................. ACATATAAAAATTTGGACTTTAGATACAGAAACTAGGG 45003 29 100.0 35 ............................. TCATTTTGACTGTTAAAGGTAGTTGGTCTAGTAGC 45067 29 100.0 37 ............................. TATCTTAACCAATTTTCATTAACTGAAAATTCCCTAC 45133 29 100.0 36 ............................. AATTTCAAATAAAATTTTAAAGCACCTTCGTAGATT 45198 29 100.0 36 ............................. AAACAAAGCTTAGAGAGCCTTAGAACTCTAAGAAGA 45263 29 100.0 36 ............................. TTCCAATCGGAAATAACATAACGTTTATCTAAAACT 45328 29 100.0 37 ............................. CACATATATAACCACAAACTTGTTCTTCAACTACAAC 45394 29 100.0 37 ............................. TCTCGACACAACAGAATAAACATAATATATAAGCATA 45460 29 100.0 37 ............................. CAGAAGAACAAAAGAGCAGAATAGAGCAGATAAAAGC 45526 29 100.0 38 ............................. TCGGAGTAAGGAATCTGAATATCAATAGTAACACTAGA 45593 29 100.0 36 ............................. ATCACTTAACTTAAATACTTTCGAATTATTAGCTAA 45658 29 100.0 37 ............................. AGTCCTAGCATAAAATAAATAGGTATAGCTAAATCAG 45724 29 100.0 37 ............................. AACATAGATTATCTAGATATATCTCATTATTTATCTT 45790 29 96.6 37 ..........G.................. CCATTATTATTTATTTTTTTATTTAAAATAGCTTCTG 45856 29 100.0 37 ............................. CCTCGATTACTTAATTTATAAGTCAATAAAATAAGTC 45922 29 100.0 38 ............................. TATAATATTATATTTGAATACACTGAAAAAGAAATAGG 45989 29 100.0 37 ............................. ATCGTTTTGACAGATGAACAAAAGAGATTAGAAGCAT 46055 29 100.0 36 ............................. GTTTTAAACAAAGGACAAATGATTTTTGCAGAAGAA 46120 29 100.0 37 ............................. TCAAAAGTCAACAAAACTTCCCTGTCTAGTTTAGTTA 46186 29 100.0 36 ............................. CTATAAACTTTGTCATATACATCAATTAGATGTTTA 46251 29 72.4 0 ...............AAAT....AG..TA | Deletion [46286] ========== ====== ====== ====== ============================= ====================================== ================== 39 29 99.2 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ATTTGATGATAGTAGATGTATGCAGAAATATCTATATGTATGTGCAAAAAAGTAATATAATAGGTAAAATATATAAATATATATGCTATAATATTTTTAGCAAGGAAAATAAAATTGAAAAGCTAAGGGTGATTTTCTCATATAAACGCCAAATATGACAAAATAAAAAATCACCCAAACGCCAATAAGGGTGATTTAAAGAAATAACTTTTAAATTCTAATCAATTAGAGAGATTCACCTTTTACAAAGTAAATTTTATCTCCTTGTTTTTATTATATCACAAATTGGTATAAATATTCAAAAATAATATATTTATGATATAATAAAATTATAGAAGTTTTGCAGTGAGCGATATTTGTGATAAAATATGGCTTAACAGTTGAAATTTAAGGCATTGAGAGTGTGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAACGTTGTATATGTGTAAGCATTGGAAATGCTAAATTTATTTTGGG # Right flank : AAAACATGTATTCATATTTAAACTATGTATCTATATAAAAAAGTGAACCCTGTCAACAAACCACTTTTTTATATAGATAAATTATTATTTTGTTTTAAGATGTAACATACTAATGATAAATGTTTGTAACAACATGTTTATCATTAGTATCTTTAATACATAAAGGTTAATTTTTTACATAAGCTTATTTTTTAGAAAAATGAGCAGTATCAATAAATATCTTGTCTAAATTTTCTCTAGTAACTAATTGACCAGTTATAAGATTAGCTTCAACAGTAACACTACTTTGATTGTCAAACTCTGAACTTGAGTTTAAAGGTTCATTCTTATCCATATAAGCAGCTTTATTATTCGCATATACTATAACAATTTTTACCATGTGCTTTTGATAAATACAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATACAATTTAGTTGAATCACTAGCAAAAGCAACACCAATGCTTAATGTTATTTTGTGTTTATCTTTTATTCT # 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 : 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 [0-9] 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], // Array 1 104703-105779 **** Predicted by CRISPRDetect 2.4 *** >NZ_JPPA01000066.1 Clostridioides difficile strain RA09-70 LOCUS_66, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 104703 29 100.0 38 ............................. TTAAACGCTTTCACAATAGTTTTCCCTAAACTTTTCGC 104770 29 100.0 36 ............................. AATAAAATAACAGAAAAATTTAAAGATATTATTCAA 104835 29 100.0 37 ............................. GAAACAACAGACTTAACTAGTGCAAAAATCTTATTAA 104901 29 100.0 37 ............................. CAAATCCGGATAATATCTTCTTAGTGTTCTAAGGCTT 104967 29 100.0 36 ............................. CTAATGGAGTATGAGGTAGTAAAACATACAAAAAGT 105032 29 100.0 36 ............................. TTTTATGGGGGGGAGTAGTAGTATCGACCTTATACC 105097 29 100.0 36 ............................. GTATTATAACTTCCTATGTTACAATCTCCTGTATTA 105162 29 100.0 37 ............................. CTGAATTTTTTTGCAGAAGTAGTCTTCTCGCTTCATT 105228 29 100.0 35 ............................. GATACTGATATCGTAGAAGTTACAGCACATTCAGG 105292 29 100.0 37 ............................. AGGAAGAATTGAAAAAGTTAAAAGATTTGAAAGTGAG 105358 29 100.0 37 ............................. TCTTAACACTATGCTTTGAGTATTTATTTTTATACTT 105424 29 100.0 36 ............................. AGCATTGGAGAGGATAAATACTAACTATTAAGCGAG T [105434] 105490 29 100.0 38 ............................. TTTGATAGTTCATAACAATGCTCTATATCCCTAGTTAC 105557 29 100.0 37 ............................. TTTAATTCATCATCTGAAAAACTTTCAATTTTATTTT 105623 29 100.0 34 ............................. AGTTTTGAATTTGCTATTGAAAGTAATGGAGTTA 105686 29 100.0 37 ............................. CTAGATATGAATATTTAGAGGATTATTCGTACTTTCT 105752 28 86.2 0 ..................TA...-A.... | ========== ====== ====== ====== ============================= ====================================== ================== 17 29 99.2 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TGATGTTGACTGACATTGAACTGACATAAAACTGAACATTATTTAAAGAGAACATTACTTATATTCTCGCATGCTTCCTTATCCATTTTATCTAAAATGTGAGAATAGCTATTCATAGTTATTTTTATATCAGTATGTTCTAATTTAAAAAAAATTGTTTTTATGTTGGCTTCAGCTAGAAATAGAATAAAGAAGTTAAAAGAAGTGTTGAATTTATGGGCAATTACACAGGAAGAATATAATAAACATTTACAAACACGTAGGTGCTATTCAATTTAAATATTATTCTATTTTTATTTTATAGTATAAATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGACCGGTATTTATGCTAAAGTATGCTTTAACAGTTGAAATATAAGGTATTGAGAACGTTTGAGAACTATTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAAGAGAGTTGTATGTGTATAAGTATTGGAAATGCTCAATTTATTTTGAGG # Right flank : TATTATAAGCCATATCAAACATAAAATTTATATGTTATAGGTGAAGGAATATGCAATAAGATAAGCTTTATGACTAAAGAAAAATATAATATGCTAAAAGGGAATGATAGATTAGAAGGTAGCAATTAATTAGTTGTTACCTTCTTTTTTACTTGAAGTACTAAATTCTATAAGCGTTTTATTATAAGTAGCTTATATAACAATATATCTCCTTCTAATTAAATAATAGGATACCAGTGTTATAATGGATACTAGTATCACAGCTATCATTGCAATATATGAACTTTTTATTAATAAACCCATCATTATGTATTCTAAACCTATCAAATAGTGGTAAAATATTTCTAGTTTCATGGTTTTTTCTCTATCTATATTTCCATATTTTAATTCTAATTTATTGAGATATTTTTCACTACAATAATTAGTTTTGTGTTTAATCAAATATCTTATTGTAATACCTACTATATTTCCTATTGCAATAAGTATAAGTAAAATATTCC # 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 : 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 [0-9] 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], //