Array 1 57928-56516 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000031.1 Clostridioides difficile strain JV61 015 JV61_contig_31, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 57927 29 100.0 37 ............................. TGATGAACGATAAAACAATTATCAAACTCAGGAGAGA 57861 29 100.0 37 ............................. CACAAGTTACTTTAAAATTAGAAAAACCAATTTCAAA 57795 29 100.0 37 ............................. CTGGGATTATAATAATATACACTTCTTCTAAAGTAAA 57729 29 100.0 35 ............................. CTAATAGAAAAATCAACTTGATAAGAATTAACCAA 57665 29 100.0 37 ............................. TGACGAACAATAAAGCAGTTATCAAAATCAGTAGAAA 57599 29 100.0 37 ............................. ACAAGGTCAGTAACATCACCAGCAATTGGAACATCTA 57533 29 100.0 37 ............................. GTATAACTTTTTTACAATTATTACAAAACTTATCTTT 57467 29 100.0 37 ............................. ACATTTGAAGAACAAAACTTAGACTTTTATAACGCAC 57401 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 57335 29 100.0 38 ............................. CTAGTACCCTTCCACCAGCATCAATTGCATTATCAACC 57268 29 100.0 37 ............................. ATATAAGCAGGAAATAAACCAGCCTTTTTTGCTAATG 57202 29 100.0 36 ............................. CTTGCTGGATTTGAATTTAATATAGAATTTTCTCAG 57137 29 100.0 36 ............................. AGCTACTTAAACACATCAGTAATGGCAAATTATGGG 57072 29 100.0 37 ............................. CAAATTGCTGACAACACTGAAAGCATTATGAACGCTA 57006 29 100.0 36 ............................. TGAGGTATTAAGACGTTGAACATTTGCAGAGCATAA 56941 29 100.0 37 ............................. CGAAAAATACATTCAAGTCCAAAGCCATTGGCGAAAC 56875 29 100.0 36 ............................. TCTGGAATATGAGAAGTTTCTGTAGTACCATAAAGT 56810 29 96.6 39 ...............T............. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 56742 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 56676 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 56610 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 56544 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATATAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAGTTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTATAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 : 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 [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 17951-16287 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000035.1 Clostridioides difficile strain JV61 015 JV61_contig_35, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 17950 29 100.0 37 ............................. AATCATGCAACAGTACGAACGTACAAACCATCAATTA 17884 29 100.0 36 ............................. TTTCTATATCTTGAAAATTTTGTTAATGATGTTGGA 17819 29 100.0 37 ............................. CCTGTTGTAATTCAAGCGGTCAGAGGAATAGAAATAA 17753 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 17687 29 100.0 37 ............................. CCTTGACACAACAGAATAAACATAATATATAAGCATA 17621 29 100.0 37 ............................. TTATTTCTTTCAAACTACTATTTTCATTTAACTTTGC 17555 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 17490 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 17424 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 17359 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 17294 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 17227 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 17160 29 100.0 36 ............................. CTGGTTATTGTCTCATCACCATTATGCTTAGGTATG 17095 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 17030 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 16965 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 16900 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 16834 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 16769 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 16703 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 16638 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 16572 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 16506 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 16440 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 16374 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [16317] 16316 29 69.0 0 AC........T.A....CAT.T.C..... | A [16301] ========== ====== ====== ====== ============================= ====================================== ================== 26 29 98.5 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-73.3]%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 4798-5089 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000041.1 Clostridioides difficile strain JV61 015 JV61_contig_41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 4798 29 100.0 37 ............................. TGTATCTCCTATCGCCATTTATGCTATTAAATACAAA 4864 29 100.0 36 ............................. CTGTTTTAAACAATTTAAGCATTGAACAAAATCAAA 4929 29 100.0 37 ............................. TTTTCAAAGCTGCTCTAAGTGCTCCATACTTTTCCTT 4995 29 100.0 37 ............................. GAATTTTTGAAATGCACTGAATACTCATTTATTACAT 5061 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 100.0 37 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTTAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGATATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGGG # Right flank : GAATGATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGGGAATTTAAGATTGCAAAGGAAATGGAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTGTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTATTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGCCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTTTGTGGAAATTTGTGGTAGAATGTAGTT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : ATTTTATATTAACTATGTGGTATGTAAAG # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [71.7-66.7]%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 1 19806-20227 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000042.1 Clostridioides difficile strain JV61 015 JV61_contig_42, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 19806 29 100.0 37 ............................. ACGGCTTTCAGTTGTTACTAACGCATTCTCAATATGC 19872 29 100.0 37 ............................. ACTACTTTTTGAGAAGGAGTTGAACTTAAACCTAACA 19938 29 100.0 37 ............................. AACAGAAGAAACAATTTTTATTCCTCCTTCAAATACA 20004 29 100.0 37 ............................. AAGGCTTTAGAGACTGTAAGAAGTATATTTGCTCAAG 20070 29 100.0 35 ............................. GCTAAAACATTACTTGATAAAAACAAAATTACAGG 20134 29 93.1 37 ..............GA............. TTATCAATCTTAGTATTAGATGTATCTTTGTATAATT 20200 28 79.3 0 G..............A....-..TC...A | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 96.1 37 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : GGAGAATTAAGGGAAATAATAGCTGAAGATTCAATACTTAATTTTCATAGCCAAGAATTTATTGATAATATAAGGAGAAAAATAAATATAAGTAAGAATAATTTAGAAAATAATAAAGAAAAACAAATAAAATCAAATGATGATGCAATACAACAAGTGAAAGGGTTAAAAGAGTTATTAGACATGGGAGCAATAACAGAGGAAGAATTTAATAAGAAGAAAAAAGAATTATTGAATTTATAACAAGAGAAAATAAATAAGTATAAACATACAAAGCACTTGAATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATATAGGTAAGGCTTTAGCAGTGTTCGATTTTTTGAAATATTGCTTGTAGTGATTGAAATTACTATATTACAGGTATGCTTTATGAAATGCCAAAAAACACTACTGGTCGCTCACTGCAAATTTAAGAAAGCTATATATATGTAAGTATTGGAAATACTAAATTTATTTTGGG # Right flank : ACTAAATAAACAAAGAAAGCACTTACTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAA # 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 : 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:83.33%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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-66.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 23383-23803 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000042.1 Clostridioides difficile strain JV61 015 JV61_contig_42, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23383 29 100.0 37 ............................. GTACTCCATTTACTACACCATTAGTCAAATCTGTACC 23449 29 100.0 36 ............................. TAAAAAATACAAAGAAGAATTGTACAACGAATTTTC 23514 29 100.0 38 ............................. AAATACTTCACCAAATAAACCCCTAGTTTCTGTATCTA 23581 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 23646 29 100.0 36 ............................. TTAGTATCTGCTACAAAGTATTCTAAAGTCCATTTG 23711 29 100.0 36 ............................. TCTTGATTAAATCCGATTTTAAATGAATTAAATGTA 23776 28 86.2 0 ..................-..A.T....T | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 98.0 37 GTTTTATAATGACTATGTAGTGTGTAAAC # Left flank : TTATACTTCTCAAACATGTTCAGAGTGTGGTCATGTAGACAAAGAAAACAGGGAAACACAGGCTAAATTTAAATGTTTAGAATGTGGATTTGAAGCTAATGCAGACTATAATGCTGCTAGAAATATAGCAAAAAGTGATAAATTTGTAAAATAAAATACAATAATATATGTACGGGTGATTTAGTGTAGATGGTAATATCTCCAAGATAAAACTTGCATCCGAAGGGTGAGGGTATAGATAAAACGCATAAGGTAGTATGCCAAATATGTGCTATAACCACTCACTAAGCCGAAAAAACCCTAGTTATAATGGCAACTAGGCACACTATTAATATATAAAATGCAGTGAGCGAACTTTTACATTTACATACTTTAAGTAGTTGAAATTACTAGGGTGTAACAATTATTTTTGAAATGTCAAAAAACACTACTGGTGGTTCACTGCAATATTTTGTAAATTACATAGACAAAATCATTGCAATTACTGTGTTATATTTGGG # Right flank : TTCAATATTTTGAAAGTATTATAATAATCAAAAATAAATATTAAAACAAAACTAACACTTACTCAGGTAGGTGTTTTTTTGTTGAAAGAAGGTGATTATGATATAAAAAGTAATAAATAGGTAAAATATGTAAGAATTATATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTAAACGCCAAATTCCATAGCGGAAGGAGGTGGAACGATATGGTGATAGATTTTTTATTGAGTATACTAGCTGGTGTTATATCAGCTTTCATGTATGAGAAAATAAAAAACCACTCAAACGCCAATAAGAGTGGTTTAAAAAAATAAGTTATTTTTAATCTGATTGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTAGAAAAAATATTGCATATAATATTTTTTATAGTCAATAAAAAGATGAAATTTTTTATACAAAATAATAATG # Questionable array : NO Score: 3.16 # Score Detail : 1:0, 2:0, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATAATGACTATGTAGTGTGTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:72.41%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-86.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 1 73582-73353 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000048.1 Clostridioides difficile strain JV61 015 JV61_contig_48, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 73581 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 73516 29 100.0 40 ............................. ACAAGAGCCTATTGACCTTAAAGGATGTTTATACACTAAG 73447 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 73381 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ======================================== ================== 4 29 99.2 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : 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 1 2938-2448 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000055.1 Clostridioides difficile strain JV61 015 JV61_contig_55, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2937 29 100.0 36 ............................. TTTAGATAGTAACTATATGATGTAATTTCTTTTTTT 2872 29 100.0 37 ............................. TTGTATTACCATGTTTAGCAAAGAATTGATTATACTA 2806 29 100.0 38 ............................. TTTGTTGTTTTCATATCTACTGATTGAAATATCTGAAA 2739 29 100.0 37 ............................. TCATAATTGACAGCGTCACCATCTATTAGCCCAAACA 2673 29 100.0 36 ............................. TAGATGAGGAGAACAGGAAAGCAATAGAGAAAATTA 2608 29 100.0 37 ............................. ATAAATATCTCTGCAACTTGCATATTTTATTTTTATT 2542 29 100.0 37 ............................. TCTTGATAATGTACATTTATTTTAATACTTTTCTCTT 2476 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : AGCACTGATTTTTATGTGGTTGTATTGTATGAGAGTTCTGGAATAGATTCATATTGGGTTTTTATAGATACTGATACATGGACTGTTCATGATATACAGCGTTTAAATCAAAATGAAGAATTAGTATCATATCATGATGTAAACCCAAATACAGAAGCAGATAAGCATTATAATAGAGATGTTGATGATGTTAATATTATATTTGTTCCATCAGAAAATAATCCTTTTGATAATGATGTAGATGGAATAAATTAAATATTTATTATAAGGAGTTAAACTATAAATTGATATAAATATTTAAAAATAATGTATTTATGATATAATAAAACTATGGAAATTTTGCAGTGAGCGATATTTATGATAAAATGGGGCTTAGCAGTTGAAATATAAGGCATTGAGGGTGTATGATAAGTGTTATCATTTGCACTACTGCCCGCTCACTGCAAATTTAAGAGAGTTGTATATGCGTAGGCATTGAAAATACTCAACTTATTTTGGAG # Right flank : AATTTTTAAATAATAGAAATAGACTAGTATTTAGCTAGTCTATTTTTTCTTTTCTTCTTTTTAATTCTTCCATTATGAATACTGCTGCGACTATTAAATAGTTAACTTCTAAACCAATTGCTAGGTCAACTATTGTTGTAACAGTAACATTTTTATAATCGCCCTTTTCTAACTTGGAAATATAACTTTTGTGATAGTTAATTTTTTCTGCGAGTTCTAATTGTGTTAAATGTCTCATTTTTCTCAGTTGTCTTAACATAAATTTAAATCACCTTTTAATTTATTTTTTAGTAAATTCAGATAATTATATTATGTGCATTTTTGTGGGGAAAAGTTTCCTATTAGTCGATTTTTTTGTTGGAAATTTGTGCTAAAATATAAGTAAGAAATAACTCTAGCTAGATAGAGAAAAAATAGAAAATTGTAGATTTTGATAAGTCTTGCAATTAAATTTATGCAAATGTAAGCACTTTTTAAAAGATAGGGGATGGTTGTAATTA # 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [81.7-66.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 29469-28978 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000061.1 Clostridioides difficile strain JV61 015 JV61_contig_61, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 29468 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 29402 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 29336 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 29270 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 29204 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 29138 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 29071 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 29006 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 98.3 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # 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 : 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 1 225-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000141.1 Clostridioides difficile strain JV61 015 JV61_contig_151, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 224 29 82.8 37 T....T.T..TT................. TAAAGAGGGGTACTTCGTACTTTTACCACTCAAACTA 158 29 100.0 38 ............................. AGGTCAAGCATAGATTTTGCAACTGGAAGATAAGAAGA 91 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 25 25 86.2 0 .........................---- | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 92.2 38 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT # Right flank : T # Questionable array : NO Score: 5.47 # Score Detail : 1:0, 2:3, 3:0, 4:0.61, 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 : 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:76.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% 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: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 13997-13711 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000015.1 Clostridioides difficile strain JV61 015 JV61_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 13996 29 100.0 37 ............................. CTGACTACACTCTTTATTTTACTAGCAGCAGAAGAAA 13930 29 96.6 37 ...............A............. GTCGGACTTATTATCATAGATATCCCTTTTGCCAAAA 13864 29 96.6 35 ............................A ATTGTTTTAAATTGATTAAGTACATCTGTTGATTT 13800 29 75.9 32 A.................AT...AC..TT AAATTAAAAAATATATTTGAGTTAGAGAGGGA 13739 28 72.4 0 .....T....CGT...T...A.-.....A | G [13731] ========== ====== ====== ====== ============================= ===================================== ================== 5 29 88.3 36 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : TGTAAAGAAGCTGTATTTGTAACTGAGGGAATTGAATATCAAGTGGCAGATGGTGATGGAAATGTGCTACAAACTTATCCAGTAGACGATTCAACTAGAATGCAACAAGAAACAACAGCAGGTACTAAATCAAAGGGAACAACAGCGTTTGCTATAACATCAGACTCAAATGCTGTAAAAATAATTGTAAAAGATAAAGTAAATAATAAGGTCATGGGAGAAATAAATGCTACTTTAGAATAAAAATAGTATTAGAGAAAAGAAAAAAGTTAACAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATAAATTGGATGTAATCATTGAAAGTGCTATGATATAAGCATGTTTTGTGGTGTGTGAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGCAAGAACTGGAAGTGTTCAATTTATTTTGGG # Right flank : TTACAAAAGAAGAAAAAGAGAAAAATCGAGAAGAAACTGCAAAGTATTATGAAAGACTTAAAAATATGACAAAAGAAGAAAAAAAAGAGTATGAAATTCAAGAATTTATGAAGAAATATCAGTTAGAAAATTTAGATGAAAAAGATTTAATAGTGTTAAAGAGAATAGCAAGTGATTTGTTTGGAAATGGTCTTATTAAGGCAGGTATGGCTTTAAGCTTTACTGATGCAAAGGAACAAGCAAAAATAGGATACCTTAGTGCTTTAACAGAACAAAATTGGATGATAATTAGACAGTTAGCTCAGTTGAATACCAATATAGAAAAACTTATAGAAGATAAAAAAGAATAAATTGAAAATAGCAATACAGACACTTACTTAAATAGTAGGTGTTTTTTTATATGGAATTTTGAGGAAGGGAGGGAAAAATATGTCCTTAGAATTAGGAACAGCAGTAGGTTATCTAGATTTAGATGGAGGGAAGTTTTTTAAAGCTCTTGC # Questionable array : NO Score: 3.48 # Score Detail : 1:0, 2:3, 3:0, 4:0.41, 5:-1.5, 6:0.25, 7:0.01, 8:0.8, 9:0.51, # 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 : GTATTATATTAACTATGTGGTATGTAAAG # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.20] Score: 0/0.37 # Array degeneracy analysis prediction: R [14-1] 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 [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 95835-95212 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000015.1 Clostridioides difficile strain JV61 015 JV61_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 95834 29 100.0 37 ............................. ATGAATTTAGATTTTGAAAATTGTAAATCACATGGTA 95768 29 100.0 36 ............................. ATAATTAAAGGCGACATCATAATCACGTATATTATC 95703 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 95638 29 100.0 37 ............................. AAAGAACTTTTAAGAAGAATGTTACTTGCAGGAGAAA 95572 29 100.0 36 ............................. GTTCGTCTATGTTTTGCAATAGCAGGTTTTAGTTTC 95507 29 100.0 36 ............................. TTCGAAAGCGGTAAAACAGCATTATCACTTTCAAAA 95442 29 100.0 36 ............................. TGAAAAATGTTAAGCGTAATATCAAAAATAGCGGGA 95377 29 100.0 40 ............................. CCAGTTACGTCCTTGCTAAAATCTTTTTCAACCCAAGAAT 95308 29 100.0 39 ............................. CTCAAAGTTGGACTAACTTCATCTTTTAATTTTACAAGT 95240 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTTTTTAAGGTGTTATTTTATGATTATATAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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: F [86.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 4279-3658 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000079.1 Clostridioides difficile strain JV61 015 JV61_contig_81, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 4278 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 4212 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 4146 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 4080 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 4013 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 3948 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 3882 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 3817 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 3751 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 3686 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 97.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : GAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTGATTGGTGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTCTATGTATCAAAAAAGTAAAAAGCCACTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAAATTTTCATTTAAGTTCAAAAAAAATAAGCATTAAATTGTTTAGAACTTCACTCTACTTCCAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : AAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAAACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTATTTTGCTCAAAATATTTTAAATCAATAGACTAAGTTCTTATTTTTAGATAGAATTATATTTGAATAAAGAATTTAATAGGGGAGAGTTCATTATGTGGGGAAAATTTAAAAAATTAAGTTTGTTGAAGAAAATTTTAGTGATATTTTTAATATACTTTGTTGTATTTACAGTATCAATGATGATTCATCAAGCGATACGAGATTCAAAAAATAGAGATGAAGTAAATGAAGGAAATATTACAAAAGAAAATATAATTAGCGAAAGAGAAAAAGAAGATATTTATAAACAAGAGATGCAAGCAAAAGTAGACTCTATGATACCAGAAGACTTAAAAGATAAAACAACATATTATGTTAACATATTAAACCCAACAAAAGGTGAGGGATATATA # 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 : 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-63.3]%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 296646-298388 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000008.1 Clostridioides difficile strain JV61 015 JV61_contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 296646 29 100.0 37 ............................. TTTCAATAACTTCTCTAGTTTTATTATAAATACGAAA 296712 29 100.0 37 ............................. TATCTTTATCAGAAGTTAAAACTAAACCAGTTGCTCC 296778 29 100.0 37 ............................. TATAGAACGTAACTATTTCAGTCTCTTTACTTTGCAA 296844 29 100.0 38 ............................. ATTTTAAATAATGAAGTTGTTTTAGATTTTAGTAATTT 296911 29 100.0 36 ............................. TACCAATAAGTTACAGCAGTAAACAGACTAACTGGA 296976 29 100.0 36 ............................. ATTTGAATATGAGATTAAGCATAGGAAAGTTAATAA 297041 29 100.0 37 ............................. CGAAAAAAACTTCTAAGAAAAAAGAAAGCAGTACTAT 297107 29 100.0 38 ............................. AGAGTTCGCTCTACCTACAACATGCACAGATTGAGAGA 297174 29 100.0 37 ............................. TGTCTCAAAAACCGTCTTTTTTTGTCCTATAAAAGGC 297240 29 100.0 35 ............................. CATCATGTAAAGAATACTTTTGTCCTGTAAAATCA 297304 29 100.0 38 ............................. ATTTTTATAGCTGTTTATAATTGGTATGGTGTTAATGT 297371 29 100.0 38 ............................. TATATAGAGTTTTATAATGATATTTATTCTCTTTATCA 297438 29 100.0 38 ............................. CCGTAACCTTTTTATTGTTGTTGTTATTGTTATTATTA 297505 29 100.0 37 ............................. GAAGCAACTGCAAGAGTAACAATTACGTTAGCGAGTT 297571 29 100.0 38 ............................. GCTATTTGTTCTGCTGATATTGAAATGAATAGAACTTC 297638 29 100.0 38 ............................. TTGGAAAATTCATAAAAATAAATTTAATTGGAGATTGA 297705 29 100.0 36 ............................. AAAGCATCAGTTTTAACTGAAGTAAGTGCAGTAGTC 297770 29 100.0 37 ............................. TTTTCTTTTTGTTATCAGTCATGAGCATCAAACACAT 297836 29 100.0 37 ............................. GAATAAAAATAAATCAATAAAAACAACCTCCCAACTT 297902 29 100.0 36 ............................. GAGGTTTACAACATTGCAACTAAATATGAGCAGGCA 297967 29 100.0 37 ............................. TAAGTTCAGCTTCTGGTATCTTTTTCATACATTATAT 298033 29 100.0 38 ............................. GGTAATGCTGATGATTTGGTTGGAGTTCCTTCTTCTGA 298100 29 100.0 36 ............................. GCTACACAAAAGAGGTAGCAGGTAAAAATGACTTAG 298165 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 298231 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 298296 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 298360 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 27 29 97.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGAAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAGCAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAATAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 54821-55310 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000018.1 Clostridioides difficile strain JV61 015 JV61_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 54821 29 100.0 38 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCCC 54888 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 54954 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 55019 29 100.0 36 ............................. GTAAATCTTTTAATGTGGCAAGTATAACAGTAGGGT 55084 29 100.0 38 ............................. AATGCAGCAGTAAAATATGTTGAAACATCAACTCCCAG 55151 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 55216 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 55282 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGCATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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 2885-2718 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVM010000020.1 Clostridioides difficile strain JV61 015 JV61_contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 2884 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 2817 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 2750 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAGCAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGCCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : CAGATAAATCAATTATAAGATTATATACTATCCTTATACTCTAGTTAAATATATTTTAATCACTAATATAAATTAGTTTTTTTAACAAAACAATAAAAGAGTAAAGTACAAATAATTCCTTTGTGCTCTACTCTTTTTAACTTTCTTTAGACAATAATACAATGATAAATGTAAAAAATTATATATTCCATTCTATAGAAATATGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCAGTTCATATACAAAGTCAATTTCATTGAGAAACATTTAATATATGTTTATAAAAATTTCATACTATTCTTTCATATTTGCATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGCTTGTATATTATTTATATAATCTAATATTTTAAGAAGGTGGTGT # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : CTACAATTTGATTAGGATATTATCTTAATTTGT # 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:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.78 Confidence: HIGH] # Array family : NA //