Array 1 196982-195832 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000002.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00002, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 196981 29 100.0 37 ............................. TTAATTTATCTATAATTTAAAACGGTGAATTACATAT 196915 29 100.0 37 ............................. TAAAGAGGGGTACTTCGTACTTTTACCACTCAAACTA 196849 29 100.0 38 ............................. AGGTCAAGCATAGATTTTGCAACTGGAAGATAAGAAGA 196782 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 196716 29 100.0 37 ............................. TGGAGCATTATGTTTTTAGGTTACGGAGCAACATTTA 196650 29 100.0 37 ............................. GGTGATAGTGGAAGTTTTACTTATACTTGGCGTGCTG 196584 29 100.0 38 ............................. TTCAGAATACTTAGCTCCTGCGCCTATATCGTCTGAAT 196517 29 100.0 36 ............................. AAAGTTTTGCGCATTGTATGTGTGCCTAGATTATCT 196452 29 100.0 37 ............................. ATGTCCCCACATCAATTTTCCTCCGCATGAAAAAATC 196386 29 100.0 37 ............................. TTTAGAAACAACAGAATAAACATAATATATAAGCATA 196320 29 100.0 36 ............................. CTATATCGCATATTCTTTTATCTAGGTCTTCTTTTC 196255 29 100.0 37 ............................. ATAATCTTGTTATAGACTTTACTATTGTTGTAATAGA 196189 29 100.0 35 ............................. CTTACCAGACCCTGCAACACTAAATGACTTACATA 196125 29 100.0 37 ............................. TCATCAGTATTTGTAAAATGCTTTAACTTATCATAAT 196059 29 100.0 39 ............................. TTTTACTTTTCCTTTCTATGTGTCCAATTCGGACACATT 195991 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 195925 29 82.8 36 .C.............CA..A...A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 195860 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 18 29 98.7 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 23390-23100 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000026.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00026, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23389 29 100.0 37 ............................. CTTTGTAATGGTAGTGTATTTAAGATTGAAACATCAA 23323 29 100.0 36 ............................. CAACATTAGTAGTTGTCTTTATACACATAGCATCAC 23258 29 100.0 38 ............................. ACAGCTCCCAAGACATACAACGAATCTGTAACATCAGT 23191 29 89.7 34 ................G...T.......A GACTTATTTACAGCTTTATTTGCTAAATCAGAAG 23128 29 86.2 0 ................G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : ATTGCAGGTGAAAAGAAGAATTATCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTAGTTTAGTTTTGGGGGGATTAATACAATGCATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTCTTAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTTCACTGTTTCAAGTGCTTTATATGGTAAAAAATGGTATAATAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTCAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TAAAAATAATTAAAAAACACTTACTAATGTAGGTGTTTTTTTATTGAAAGGAAGTGATTATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGAGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCACTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGAGATTTAAAATTAACTGTTAATAGCATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCATACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCATTCACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTGATGTA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [80.0-70.0]%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 2 25611-25254 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000026.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00026, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 25610 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 25545 29 100.0 37 ............................. TTCAGTGAGAATAAGCTTTATTGTCGATGTAACACTC 25479 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 25413 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 25348 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 25282 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 97.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATAGGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAATAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGAAAATACTCAACTTATTTTGGG # Right flank : TAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAATTACTTAATTATAAAGTTGCTAAGTACAACTTTTTAGAATTATACAATATAAAAATGCACTAAAGTGATTGATTTTGCTCAAGTTGGTCGGTTGAGTAAAATAATTAGAAAAAAATGTTAAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAAAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAGAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGCTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 3 118288-117994 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000026.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00026, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 118287 29 100.0 36 ............................. CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 118222 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 118156 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 118089 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 118022 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 97.9 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCTATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [83.3-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 114880-113200 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000027.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00027, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 114879 29 100.0 37 ............................. CTAACTAGATCAACAAGGCCATTCCAAATTGATTTTA 114813 29 100.0 36 ............................. TTAAAGGTGCAAGTCTTAATACTTGTTACATGAGTT 114748 29 100.0 37 ............................. AACAAAGAACCATTTGAATCACGAAAACTAAAAAACA 114682 29 100.0 38 ............................. TTATTAACCTTATCAGAAACCTGACCATCCCAATTATA 114615 29 100.0 36 ............................. TCCATTTGTCTAATGCTTCTAACTCTTTTTTTATAC 114550 29 100.0 38 ............................. TCCAAAATGGGCTTGGAGTTAAGAGTTGTATAAGAAAC 114483 29 100.0 38 ............................. TAATTACACACTCCCTTTTAACGAACATATTTTAGATT 114416 29 100.0 41 ............................. AGACTCGACATAGAATCGGTTACTAAATCCGAGGGTTTCAG 114346 29 100.0 37 ............................. ACTAAACCTTTTTGTTTACTTTTATTTCTCATTTTAC 114280 29 100.0 37 ............................. CCGGATTTTTCTGCTTCGACTGTTGTTATTGAGACTT 114214 29 100.0 38 ............................. AGTAATTCCATGCAATCTTTTATATTGCTTTTTAACCT 114147 29 100.0 36 ............................. AGATATACAAGGTGAAAGTGTTGAAATTTCAATCTT 114082 29 100.0 36 ............................. ATTCTTAGATGTTATAATTTGTGTTGCATTTAAATC 114017 29 100.0 37 ............................. ACAATATTATTGTTCATTTCATTTAATAATTCTAGTA 113951 29 100.0 37 ............................. TTGTTTATACCTTTAATCTTTAAAATTAAATATAAAA 113885 29 100.0 37 ............................. CATTGTATACTAAGCTTGATATAGTGCAAAATGAAAC 113819 29 100.0 36 ............................. ACTAATTGGGTTAAACAAATGGATATAACTAAATTA 113754 29 100.0 37 ............................. CCAACCCTTCGCACGAATCCGTGCGACGAAATATAAA 113688 29 100.0 37 ............................. TGTAAAAATATTGCTTAGCATATTGATATCACTAACT 113622 29 100.0 37 ............................. ACAAGAGGTTTTTCAGCAATATATGTACTTCTATAAT 113556 29 100.0 38 ............................. TCATCAATATTAATTTTGGGAATATCAACATTTTTTGC 113489 29 100.0 37 ............................. GCGATAAGAGATTCGAGTCTTTTTACTGGGCTTAATC 113423 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 113357 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 113292 29 75.9 35 A...........TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 113228 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ========================================= ================== 26 29 97.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : AAAATGCACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAGAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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 [18-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-76.7]%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 64126-63503 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000004.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00004, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 64125 29 100.0 39 ............................. ATTCCGGAAAGTACTTTTGCTATTTGATTCATTCTACCC 64057 29 100.0 37 ............................. TTCACTAATTTTAGTTACAACTATTACAAGTCCAGCC 63991 29 100.0 36 ............................. TATGTGTAATGTATTTTAATGTTTTCTAGCAACAAT 63926 29 96.6 37 ................A............ TTTATAAATTCTATGAATAATTTTAAAGAGAGGTTTC 63860 29 100.0 36 ............................. TGTACATTTGACATAGAAGCTTCAAAATCCATCCCA 63795 29 100.0 37 ............................. GTAACAGCACGAATGATGGCACAGACCTATCTGCAAT 63729 29 100.0 39 ............................. AGAAGTACACTTACAAGTAAGATAAAAGACCCAGGTACA 63661 29 100.0 36 ............................. TCTGTAGCTATATGTGGAAGTAATTTTAGTAGAGAG 63596 29 100.0 36 ............................. TATTGAAGGGGTGAGAGTTGTGACTAGGCACTACAA 63531 29 89.7 0 .....G..........A......G..... | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.6 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : GGGTATGGAATAAATCTGCTAATAATGATATGTTAAATAATGATACTATTAGTGTTGTGCCTGAATGTCTTTTAGAAGAGTACAAGTTGTATATTGATAAAAAAATGTATTTAGAAGCGAGTTCATTATTTGTAAATGTATCTGTAAAAAGATACAATTATAATAAAAAGATGTTTTATGAATGTGGAGATATAGTTGTTACAAGTTATAGTTATAATGATAAACTAGGTCTAATATTTGATTGTTAAGAGAATTATAGTATAACTAATTAAAATATTTTATTGAGAATTTGTTATAATTTATATCGACTACAAATTTTATATGTTACAATAGAATAATTTTGCAGTGAGCGAAAAATATGTGTAAATGGCTGTGAGTTAGTGATGGCAAGGTTTATAACTGAATTTTTGTTTTTAGCTAAAAACACTACTGGTGCCTCACTGCAAATTAACTATTTTAATAACCCTACAAGTGTTGTAATTACTATAGTTTTATTTGGG # Right flank : TTACTTATTCATTAAGAAACTTAACTGAGAGTTTGATTTATATTATTGAATTAGCAAGAGTTTTAGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAATAATAAAAAATATCCAAAAAAATTAGTATAACATCATAACTAAATAGCTATATACCTACACTTACGAAAACCAACAAAACAATCAAATAACCACTTGTAGACTCCCCTCGTCTCCACCAATTTTGAAAATGAAAATAATAGAATAAAAGGAATTACTTATGTTTGGACTAAGTAATTCCTTTTATTTTGCTTAAAAGCACACAATTAGCACACAACTAGAAGGTTATATAAATAAAAAGGCTGTCGCACTAGAAAATAGTGCTACGCTCTTTTTTGTATAAAAAAATAAATCCCAAGTTCAAAAGAACCTGGGATTCTTGTATAATAACTGTATGCTAAAACAAAATACTACACAAATTGATTATACTACTTATGGTGATAATTATCA # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 299309-299934 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000008.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00008, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 299309 29 100.0 36 ............................. TAGGATTGGTGTGTTACGACCACACAACGCTGGACT 299374 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 299442 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 299508 29 100.0 38 ............................. CTGCTTTGGCTTTTGGTCGTATAATGCTCCTTATAATA 299575 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 299641 29 100.0 38 ............................. AATAAAAAAGGTATAGTTTTCTTCTTAGTTACTGCCAT 299708 29 100.0 37 ............................. TGTTATAATATTAAAACACAACTAAAATATACAGAAA 299774 29 100.0 36 ............................. TCTAGTTTTTTCTCTTTAGAAAAAATAAAAACAACT 299839 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 299906 29 86.2 0 ............T......T...A....T | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGA # 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 : GTTTTATATTAACTATATGGAATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-85.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 858-1811 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000009.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 858 29 100.0 37 ............................. TCTCCATCTCCAATTAACATAAATAATTCATCCGCTG 924 29 100.0 38 ............................. CCGCTTGGCAAATCATAAGAAGGATTATTTTCTCCAAC 991 29 100.0 35 ............................. AAAATAAAAGAGTTTGAATTACCCATTTTTTCATG 1055 29 100.0 39 ............................. TACGACATTGAATAAAATGGGTACAGAGACAATTTATAA 1123 29 100.0 37 ............................. TTTATAAATCTTTTAATGACTGTCTCTGATGGTACAG 1189 29 100.0 39 ............................. AAAGGAATAGATGATATGATTGCTAATGCTGAACAACAA 1257 29 100.0 34 ............................. GGGTCTGACTTTAATATATATATATATATAAATT 1320 29 100.0 37 ............................. TTATAAACTCCCACGACAAAATTAACTATAACCTCGT 1386 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 1452 29 100.0 37 ............................. GCAGAAGATTTAGCGACTGTTGTTGCTGAATGGGATG 1518 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 1584 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 1651 29 100.0 37 ............................. TGCTGTGCCACAATTTGATGCTTCTATAGCTAAATTC 1717 29 100.0 37 ............................. CTTTTAAGTGCATCAAAGGAGTTACAAGCTATATTTA 1783 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTATGAAATATCTGTAAATGAGTAGATATTTCATAAGTTAATATTTATTGTTTGTATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAAATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCCTAACAGTTGAAATATAAGGCATTGAGGGTATGTGATAAATGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAACATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGATTTA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [70.0-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 210200-210952 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQZO01000009.1 Clostridioides difficile strain 16-349-01063 MRSN439743_contig00009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 210200 29 93.1 37 ........................G...G AGGTTTTTCAGAAGTATATGTACGTCTATATTGTAAA 210266 29 100.0 36 ............................. AAGGAAGGTGGAAGTCAATATGCATGGGTCAAATGG 210331 29 100.0 36 ............................. ACGAAATTAGAGTTTGAAATATATGACTACATAATA 210396 29 100.0 38 ............................. TTGTGTCACATCATTGTCACTTCTTTAGAATATCAAAA 210463 29 100.0 38 ............................. TTTTAAGCAGGTGATTAAATGATTAAAAAAGTAGAAAA 210530 29 100.0 38 ............................. AATAACTTGTCAATGTAGTTATATGCAACAACTTCTAT 210597 29 100.0 37 ............................. GAATTATATATTATGAAAAAATATGGAGTCACAGAGG 210663 29 100.0 36 ............................. TTGCAGGTTTTCCTTATAGTTTGCCATATGTTCCTG 210728 29 100.0 35 ............................. TACTTTAGCACTAGTAAAGGTAGAATTATTAAAGT 210792 29 100.0 37 ............................. TCGAATGTGAATGGCACTTCTATTTCTCCAACTTTTG 210858 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 210924 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 96.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGTATATGATAAACTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGGGTAAA # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTATTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGATCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATCTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 [2-9] 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], //