Array 1 157411-158426 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000001.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 157411 29 100.0 38 ............................. AGTAATATGTCTACTTCGTTTCCACCATTTTTAATAGG 157478 29 100.0 37 ............................. AGTAATATAATATTTGTTCTAGTTCTTCAACTGAAAA 157544 29 100.0 37 ............................. TATAAAAAATGGAGCTATATACAACATAACCGATATA 157610 29 100.0 38 ............................. TAACATTCATTAACATTCATTAGATATAATTAGAGCAG 157677 29 100.0 37 ............................. CCATCAACTTTAGCAACTGGTGTTTTAGGTTTTACTT 157743 29 100.0 37 ............................. TGGAAAATTGTGTAAGGAAAGAATTGAGAGATATTAA 157809 29 100.0 37 ............................. TCGTAAATTTTTTCATAATTACAAGAACAATAAGCAT 157875 29 100.0 36 ............................. AGAAATAACGCCACATATAATGCCATACGTAAAAAA 157940 29 100.0 37 ............................. ACATATTCAGCAGTAAATGCTTTAAAATCTGCATATT 158006 29 100.0 37 ............................. TCATCAAAAGTTTTTTCAACAGTAAATTCAACACCTT 158072 29 100.0 37 ............................. TCCATACTATCTAGTCTGTTTTCGATTCTGTCAAATC 158138 29 100.0 37 ............................. CTATATTCTTCATCTATCCAGTAGTGAAGCCATGCAG 158204 29 100.0 36 ............................. ACTTGTCTAGCCATTCAGTTTTTATTTTATCACCTG 158269 29 86.2 36 ................A.....G....GT AGAATATTAGCAATATAAACGAGTATTTAGAAACTT 158334 29 79.3 35 ............TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAATCAGCC 158398 29 72.4 0 ACC.............A.CA...C....T | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 96.1 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGAGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAGAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-80.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 18779-19071 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000019.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000019, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 18779 29 100.0 36 ............................. TTGATTTTTGGAATAGATTTAAGAGAAAGGTTGAAC 18844 29 100.0 37 ............................. CTACTACCTTGATTCTCACAAACAATTTTAAAATTAG 18910 29 100.0 37 ............................. GTAACTCTAAAAGCGGTTTTTGTATCTGCAGGTACTG 18976 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 19043 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 97.9 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGCGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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:80.00%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 [1-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [71.7-83.3]%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 1 238644-239456 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000003.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 238644 29 100.0 37 ............................. TTGTATTCCCCTTGACTTTTTTTCATAGAATTAACAG 238710 29 100.0 36 ............................. TTGTATTCCCCTTGACTTTTTTTCATAGAATTAACA 238775 29 100.0 37 ............................. GTTTCATAATCTATAAATCTCAATCCACTATCAGCTA 238841 29 100.0 36 ............................. TTCTGAAATTTTCTCTGGTAGCTCTGTAAAAAACTG 238906 29 100.0 38 ............................. TTAGAATATTCTATTTTACCCAAATCTATTTTGTCTGC 238973 29 100.0 37 ............................. GAGTTAGCAGGTATAAGAATGCAATCTTTAAACTATG 239039 29 100.0 37 ............................. TCGTTGTACTCGTTAAGTTTATTAGTAAAATAGTCTA 239105 29 100.0 37 ............................. TTTGTTAAATCATAATCTTCTATATCATTTCCTAAAT 239171 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATACAACAGA 239236 29 100.0 38 ............................. TGGAGGAAATGGAGTTATATATATGATTTTGTTGAACA 239303 29 100.0 37 ............................. ATATTAACAGTTCCACCTTATCCTTTTATTTTAGCTT 239369 29 89.7 29 ..................AT...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [239427] 239427 29 69.0 0 AC..........TA...CAT.T.C..... | T [239433] ========== ====== ====== ====== ============================= ====================================== ================== 13 29 96.8 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : ACCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATAATTTTGAATAGTTTAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATACTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTACTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [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 58101-56625 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000023.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000023, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 58100 29 100.0 37 ............................. TCACTAGGCAAATCATAAGGAGGATTATTCTCTCCAA 58034 29 100.0 37 ............................. TAGACTATTTTACTAATAAACTTAACGAGTACAACGA 57968 29 100.0 37 ............................. AACTATAAAAACGGTGATGAAGCTTTAAAGTTTTATC 57902 29 100.0 37 ............................. CCTTTTGCACCTTACACTCTTATAAGACAAATAAGGC 57836 29 100.0 36 ............................. TAAAGTTTCTCACCTCGATAAAAAAACGTATAATAA 57771 29 100.0 38 ............................. TTACTAACAGGAACATCAAAAGGAGGTTTAAAATCCGG 57704 29 100.0 36 ............................. ACTTATTTGGTCAATATAAACGTCATTTTCGTTTGG 57639 29 100.0 37 ............................. TTAATCCAGCCCTTACCTTTTTTTACTGTTATAGTCA 57573 29 100.0 37 ............................. TTATTAAACCTCTCCTTATATTTCTTCCATTTTTCGA 57507 29 100.0 36 ............................. CGATTAGATAATTTATAAGTCAATAAAATAAGTCCA 57442 29 100.0 37 ............................. TAATCTATTACAGGAAGAGTTGGAGCAGGAGTTTCAG 57376 29 100.0 36 ............................. TCAGCACTTGTTGTGCTACCATTTTTTAATAAGCTA 57311 29 100.0 35 ............................. TAGATGCACTTATTGTATCTCTTGCTTTTATTTGC 57247 29 100.0 37 ............................. CTTACATCTTCGCCCTGCTTCATATCACTATATAAAT 57181 29 100.0 37 ............................. TAATTCTTGGATAAAGCATATCCATAATTTTATACAC 57115 29 100.0 37 ............................. CTTATGGAAGTTGTAAATACGACAGACCAGGGAGTAG 57049 29 100.0 37 ............................. AACAATTCTATTGAATGTTTCAATTCTTCTACATCAT 56983 29 100.0 37 ............................. TCTGAATACGGAACATAAATAGCAACAGTACCAGAAT 56917 29 100.0 37 ............................. AAAGGTTTGATTAAAGATTATTCAAAATCTTTTGATT 56851 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 56785 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 56719 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 56653 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 23 29 99.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGTCTATTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAACATGCAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACTAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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: 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 18843-19330 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000032.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000032, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 18843 29 89.7 36 .GA..........A............... TTTTTACTATAGTGTATATAAAACTTATTAGTCTTT 18908 29 96.6 37 ...............A............. GTTGGTGCTGTTATAGCAGGAGTAGTATTACTAGCAA 18974 29 93.1 38 G..............A............. TCTAATGACAATGATAGATCCCCAATCCATTTGTCTAC 19041 29 96.6 37 G............................ GTTGAATAAAAATTCATTACCAGCCAATACCCTATAG 19107 29 100.0 36 ............................. ACAATTGTACTAGCTAAATCTAAATTACCATCTTTT 19172 29 100.0 36 ............................. GCCTTAAAGGCGTCATCTAAGTTTTTAGTAATCTTT 19237 29 96.6 37 ............................T GTTACAAAAGATATGGGTTCAGCTATGGACTTTGTGA 19303 28 82.8 0 G...................-..TC...A | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 94.4 37 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : AGTGAGAGAGAAATAGCATATAATAATAAGTCTGTTGTTGGAAGAGCAGCTATAGGAACTTTATTTGGCCCTATGGGAACAATTGTTGGTGGGTTGTCAGGAACTGGAAATAAAAAAAGTAAAACTGAAAAGTTGTTTATAAGTATTGAATATTTTTCTCATGGAGAATTAAGGGAAATAATAGCTGAAGATTCAATACTTAATTTTCATAGCCAAGAATTTATTGACAATATGAGAAGAAAAATAAATATAAATAAGAATAATTTAGAAAATAATAAAGAAAAACAAATAAAATCAAATGATGATGCAATACAACAAGTAAAAGGATTAAAAGAGTTATTAGACATGGGAGCAATAACAGAAGAAGAATTTAATAAGAAGAAAAAAGAATTATTGAATTTATAACAAGAGAAAATAAATAAGTATGAACATACAAAGCACTTGAATATTATGTTGTTTCAAGTGCTTTGTATGTTAAAAAGTGGTATAATGGAAATAGA # Right flank : ACTAAATAAACAAAGAAAGCACTTGCAAATATGTAGGTGCTTTTATTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGATAAGTTATTGACTTCTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCCAAAGGCAGTAGAATAACTATAAGATTGGATGAAGAATCTAAAAATATTCTAGAAAAATATTGCGAAAAAGAAAATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACGCCGACCAAAGCATACTGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAACAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAGT # Questionable array : NO Score: 5.45 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.47, # 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 : ATTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : TTTTATATTAACTAAGTGGTATGTAAAG # 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 [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [3-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%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 2 21072-21299 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000032.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000032, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 21072 29 100.0 38 ............................. AAGAAGAAACCAGTCGCACTACGAATGAGTACATTTAA 21139 29 100.0 37 ............................. TGGGATTTTTATCATTTGTTTATTGGATTTGATGTTG 21205 29 100.0 37 ............................. TTTGGTGGTATTACAATAGTTCCGTCTGGTTTTACTT 21271 29 82.8 0 ......T.........G....T.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 95.7 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATCATGTGGTATATAAAATTGAGTAAATGATATTGTATTAAATAATATATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGCGTGAGAATTTACTTAATGAGTATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTGAAGTTTGCTACATTATTATATAAATTAAAACAGAATAATGAAGAAAAATTTCAAGAATATGCAGAGATATCGAGAGGTATTCTTAGAGAACAAGAAGAGAGAGAAAATAAGTAGAATAATATGGATAAAGCACTTGGATATTCTGTTGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATATAGGTAAGAGTTTTGCAGTAAGCGATTTTTCTACTCAAGTATAGCTCAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTACTAGCCGTTCACTGCAAATTTGAGAGAGTTATATGTGTGTAGGCATTGGAAATACTTAGTTTATTTTGGG # Right flank : TTAAATAGAAAAAGAAAGCACTTACTTTTATGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTAGTAAAAACTCTTGATTTATCGTACGTACTATAATATAATTTAAGTACGGACAATAAAAAGAGAGGTGATTAGATGTCCAGTAAATTAGGCAGACCACCAAAAAAAGACTCTAAAAAACTGAGATTTGAAGTTAGACTTAATCAAGAACAAGCTGATATATTAAATGAGTGTGCTGAAAATCTTAAAATATCTAAAACAGATGTTGTAATTAGAGGAATTGAATTGGTGAAAGAGAAGCTTGACAAAAACAAATAAAAAACAGCCGCTGCACCGACCAAAGCACTTGCGACTGTTTCCCAAAGAAGTTACCTTCTATGAAATATATTCTATCATAGTAAGGGACTTCTTACAATCAAATTTAAGGAGGGTTTTACTATGAATGAAATAATGAATTTTGAAGGAAAAGAAAT # Questionable array : NO Score: 5.65 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 3 22939-23213 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000032.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000032, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================================================================== ================== 22939 28 82.8 84 ...C........G.....TT....-.... GCCAAAAAACACTACTGGTCGCTCACTGCAAATTTAAGAAAGCTATATATATGTAAGTATTGGAAATACTAAATTTATTTTGGG A,C,G [22942,22951,22953] 23054 29 100.0 36 ............................. ACTATAGAATCGCCTATTTTTGGCATATCTTTTATA 23119 29 100.0 37 ............................. TATTTATTTATAAAATTCATTGTTTCTTGTATGCTCT 23185 29 79.3 0 G...............A...GC.TA.... | ========== ====== ====== ====== ============================= ==================================================================================== ================== 4 29 90.5 53 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : ACTAATGGAAGTTGGACTGGTACTGTAAATAAGTATACAGAAAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAAAATAATAGACCTGCTAAGATTGCAGGTGAGAAGAAGAATTATCATGTGGTATATAAAATTGAGTAAATGATATTGTATTAAATAATATATTTTAGTTTAGTTTTGAGGGGGATTAATAAAATGCGTGAAAGTTTACTTAATGAATATAATTTAAAAACTGATGAAAATATAGAGTATTTTGTGAAATTTGCTAATGCGTTATATGAACTAAAACAAAATAGCGAAGAAAAATTTCAAGAATATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAGAAAATAAGTAGAATAATATGGATAAAGCACTTGGATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATATAGGTAAGGGTTTAGCAGTGTTCGATTTTTTGAAATATTGCTTGTAGTGATTGAA # Right flank : TTAAAAATACTAAAAACACTTACTTAGATAGTAGGTGTTTTTTTATTGAAAGAAGGTGATTATAATGAAAAAAGTAATAAATAGGTAAAATATGTAAGAATTATATGTTATAATATTCATGCAAGGAAAAAATGATTGAAAAAGTGTAAGAGTAGTTATTTCCATATTAAACGCCAAATTCCATAGTGGAAGGAGGTGGAGCGATATGGTAATAGATTTTTTATTAAGTGTACTAGCTGGTGTTGTATCAGCTTTTATGTATGAGAAAATAAAAAACTACTCAAACGCCAATAAGAGTAGTTTAAAAAAGTAATTAATTTTTAATCTGAATTGGAAATAACTGCTCTTGTATAAAGTAAATCATTATTTCCTTGCTTTTATTATAGCATAAATTAGAAAAAATATGCAAATAAATAAACAATGCTTATTAAATTTAATAGGCATTGTTTTTATTTTAATATTAAATAAGGAAGTGAATATATGATGAGAAAACTGCGGTG # Questionable array : NO Score: 3.59 # Score Detail : 1:0, 2:3, 3:0, 4:0.53, 5:0, 6:0.25, 7:-1.79, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTTTATATTAACTATGTGGTATGTAAAT # 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:82.14%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [8-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 4664-4173 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000045.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000045, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 4663 29 100.0 38 ............................. TAAAATTTTATCAACATTATCTGCTATTACACAAAGCA 4596 29 100.0 37 ............................. TACATTGGGGTAGCTGCAATTAGCAAAATTCTTAAAG 4530 29 100.0 38 ............................. TCATCTTACTTATATATACATAACTGTTTTTATTAACA 4463 29 100.0 37 ............................. GAATAAACCTGTTTATTTACTTCTTCCTTCATAATTT 4397 29 100.0 36 ............................. AATAACTTATCTATGAAATTAAATACTGTAACTTGA 4332 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 4266 29 86.2 36 ......T........AG...T........ TATAAATGATGGAGAAGTAAACATATCAAAGACTCC 4201 29 79.3 0 A.....T.........G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.7 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAGTAGACTTTAACAGTTGCAATGTAAGGCATTGAGAGTGTATGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACCAATATAGTATAATAATCTTATAAAATTATTGTACTAGGGGGATTTGTTATGTTTTGTTCAAATTGTGGTGCAGAAATCACAGGCATAGGCAAGTTTTGTTCAAGTTGTGGGATTGCTGTAGAAACTGAAATTATTGAAGATGATAATATTAAATCAAATGACTTAATCGTTGATGCTAATGGAATAGAAATAAATATGACTGAAATTTATAGAAAATATAGAAAAGAAAAAGTAAATGCAATAAAAAATGTAATGGAAATAAGTGGTTTGAATATAAAGGAAGCAAAAAAAATAGTGGATTCTTCTTTTGAAGAGTTAAAAATTAATTTTATTGATGATGCTATGAGTAATTCAGAAAAGGAAAAAATAATAAACAATCAAAATAGAAAAAATAATATTGAAAAAGCTCAACAAGAATC # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 113942-114634 **** Predicted by CRISPRDetect 2.4 *** >NZ_MNBQ01000006.1 Clostridioides difficile strain 5479-NonSp/ST229 5479_contig000006, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 113942 29 100.0 39 ............................. TACCAATACGTTACAGCAGTAAAGACAGAAATTGGAACA 114010 29 100.0 37 ............................. AGAGAAATTTTATTCAAAAGTATAACTTCATCAGTAC 114076 29 100.0 37 ............................. TAATAGCAAGGGCAATAGGAGCAACAGCAGAAATTGC 114142 29 100.0 37 ............................. TTTGAATTAAAATTTCTAAAAAACTAAAACTACGTTT 114208 29 100.0 37 ............................. AAAAAATTGTACTTAATTGTGCTATAATAAAAAGCAA 114274 29 100.0 38 ............................. GTAATAGCAATGGAATGGACAAGAAACACATATCGAGG 114341 29 100.0 38 ............................. ACATTTGCAATTTAATGTTAACTATCAATACCCCCAAT 114408 29 100.0 38 ............................. AAGATTACTGGTAAGGGACAAATATACTTTATTAATAA 114475 29 100.0 37 ............................. TTTTTAAATGCTTCGCTAACAGGTATTTTGTCATATG 114541 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 114606 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ======================================= ================== 11 29 99.7 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGTAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTTTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-1] 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], //