Array 1 58649-57894 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000013.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 58648 29 100.0 37 ............................. TACAGATTTTTGACTTATGCTCTTATCGAAGTCTTGC 58582 29 100.0 37 ............................. GGAATTAAAATATTATCTCCAACATCAATACTAGGAT 58516 29 100.0 37 ............................. ATGAATTTAGATTTTGAAAATTGTAAATCACATGGTA 58450 29 100.0 36 ............................. ATAATTAAAGGCGACATCATAATCACGTATATTATC 58385 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 58320 29 100.0 37 ............................. AAAGAACTTTTAAGAAGAATGTTACTTGCAGGAGAAA 58254 29 100.0 36 ............................. GTTCGTCTATGTTTTGCAATAGCAGGTTTTAGTTTC 58189 29 100.0 36 ............................. TTCGAAAGCGGTAAAACAGCATTATCACTTTCAAAA 58124 29 100.0 36 ............................. TGAAAAATGTTAAGCGTAATATCAAAAATAGCGGGA 58059 29 100.0 40 ............................. CCAGTTACGTCCTTGCTAAAATCTTTTTCAACCCAAGAAT 57990 29 100.0 39 ............................. CTCAAAGTTGGACTAACTTCATCTTTTAATTTTACAAGT 57922 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 12 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 91238-90880 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000004.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 91237 29 100.0 38 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCCC 91170 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 91104 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 91039 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 90974 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90908 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 93.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGCATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAAA # Questionable array : NO Score: 5.95 # Score Detail : 1:0, 2:3, 3:0, 4:0.69, 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 [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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 518888-519444 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000001.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 518888 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 518954 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 519020 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 519086 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 519152 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 519218 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 519284 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 519351 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 519416 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 98.5 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 : 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 [0-4] 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: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 822957-824620 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000001.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 822957 29 100.0 37 ............................. AATCATGCAACAGTACGAACGTACAAACCATCAATTA 823023 29 100.0 36 ............................. TTTCTATATCTTGAAAATTTTGTTAATGATGTTGGA 823088 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 823154 29 100.0 37 ............................. CCTTGACACAACAGAATAAACATAATATATAAGCATA 823220 29 100.0 37 ............................. TTATTTCTTTCAAACTACTATTTTCATTTAACTTTGC 823286 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 823351 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 823417 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 823482 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 823547 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 823614 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 823680 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 823747 29 100.0 36 ............................. CTGGTTATTGTCTCATCACCATTATGCTTAGGTATG 823812 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 823877 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 823942 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 824007 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 824073 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 824138 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 824204 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 824269 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 824335 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 824401 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 824467 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 824533 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [824591] 824591 29 69.0 0 AC..........TA...CAT.T.C..... | T [824597] ========== ====== ====== ====== ============================= ====================================== ================== 26 29 98.5 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATA # 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: 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 [0-2] 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 3 870371-870599 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000001.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 870371 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 870436 29 100.0 40 ............................. ACAAGAGCCTATTGACCTTAAAGGATGTTTATACACTAAG 870505 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 870571 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ======================================== ================== 4 29 99.2 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # 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:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 316735-318202 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000002.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 316735 29 100.0 37 ............................. TGAGTTCTAGCATTTTGGTTGCCGGCTGGTGCGCCTC 316801 29 100.0 37 ............................. ACTTTTATGGACATATTTTATTTTTTTTGTTATCATA 316867 29 100.0 36 ............................. ATACGTTACAGCAGTAAAGACAGAAATTGGAACAAA 316932 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 316998 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 317063 29 100.0 37 ............................. AAAATATAACTTTGATTAACATAGATTATTCTTTTAC 317129 29 100.0 37 ............................. GTAAAAAAACGTATAATAAAAATAATTTCTATCTCTG 317195 29 100.0 37 ............................. TACTTTTTTCTATATGTAAAGAACTCAACATGGTCTT 317261 29 100.0 36 ............................. TAACCTTGAATCTGCCTAACCCTGTAAAGAGAAAAA 317326 29 100.0 37 ............................. CAAGTAAAAAAACCACTGCCGTCAGCGTAAGGAATCT 317392 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 317457 29 100.0 36 ............................. ATCGCAAGATAGGCTAAATCTATCAAGGAGAGTTGA 317522 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACAAACAGTCTTACCGCAA 317588 29 100.0 37 ............................. AAATATTTTACGATTAGTTGATGCTATAATTCTATTA 317654 29 100.0 36 ............................. TCTTGTGCTCCTTGCGCAATCAAGTTATAAGACTCT 317719 29 100.0 37 ............................. GAAAATAATCTTAATGAAGTAGATTGGAATGAGGTTA 317785 29 100.0 36 ............................. TTTCTAATATCGCTATTTAAACTCAATGCTTCATTT 317850 29 100.0 37 ............................. TCAGAACAAATTAAATATGTTTCGTTTTCCATGTAAG 317916 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 317979 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 318045 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 318110 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 318174 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ===================================== ================== 23 29 97.5 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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: 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 [0-17] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-83.3]%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 118469-118302 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000003.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 118468 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 118401 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 118334 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 // Array 1 92694-93050 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000012.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 92694 29 100.0 36 ............................. GTACTAATTGCTGCACCTGTATAAAGCTCGTTTTTA 92759 29 100.0 36 ............................. TTTTCCCAATTTTGAATACTTGTATAGTGTACATTT 92824 29 100.0 37 ............................. GTTTTTGATAACTTAAAATCTAGTTTTGCAGAGTTAG 92890 29 100.0 37 ............................. AATTAAATAGCTTTTACATTGGCAATACATTCACCCA 92956 29 96.6 38 ...............A............. CCCATAGAACCAACATATTTAAATGTTTCACCCATTAG 93023 28 82.8 0 ...............A....-..TC...A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 96.6 37 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TTGCAAAAAACATTTTCAACAGGAAGAGATGTAGCTTCAAAATGTTGGCAAGAGTTAGGAGATTTAAAAGATAAATATAGCACTGAATCAACTGAATATAAAGCTATACAAAACTTGCAATTAGCATTTTTTGTGGTAAAAGATGCATGCAAAAATGGAATAAAATATTTAGATAAAAATGAGTATAAATATTATGAGAAATATGAGAAAAACTGTGGCGAGGCTGGTGCGTGGTATAGTGATTTCGTGGCGTTAAAAGGAAATCTCAACTAATATGTTAAGATAAAAAGAATTATACTTAAGAAGCTTTATTTTATGATATAATAAAAATATGTAAGTTTTGCAGTGAGCGATATTTGTAACAAAGTAGGAATTAGCAGTTGCAATGTAAGGTGTTGAGGTTGTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAAGTATTGAAGATACTCAATTTATTTTGGG # Right flank : ACTAAATAAACAAAGAAAGCACTTACTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAA # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 118185-119137 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNW01000007.1 Clostridioides difficile strain VRECD0041, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 118185 29 100.0 38 ............................. CTTACACTGCGGGTCGACTTAATTCTAATATATCAAGA 118252 29 100.0 37 ............................. TGATGAACGATAAAACAATTATCAAACTCAGGAGAGA 118318 29 100.0 38 ............................. CTAGTACCCTTCCACCAGCATCAATTGCATTATCAACC 118385 29 100.0 37 ............................. ATATAAGCAGGAAATAAACCAGCCTTTTTTGCTAATG 118451 29 100.0 36 ............................. CTTGCTGGATTTGAATTTAATATAGAATTTTCTCAG 118516 29 100.0 36 ............................. AGCTACTTAAACACATCAGTAATGGCAAATTATGGG 118581 29 100.0 37 ............................. CAAATTGCTGACAACACTGAAAGCATTATGAACGCTA 118647 29 100.0 36 ............................. TGAGGTATTAAGACGTTGAACATTTGCAGAGCATAA 118712 29 100.0 37 ............................. CGAAAAATACATTCAAGTCCAAAGCCATTGGCGAAAC 118778 29 100.0 36 ............................. TCTGGAATATGAGAAGTTTCTGTAGTACCATAAAGT 118843 29 96.6 39 ...............T............. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 118911 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 118977 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 119043 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 119109 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 97.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATATAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAGTTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTATAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 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 : 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 [0-7] 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], //