Array 1 235519-235874 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000001.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 235519 29 100.0 37 ............................. TCGATAGATTATGGTGGGTTATTTAACCCTATCGCTA 235585 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 235651 29 100.0 35 ............................. GGGTAGGCTTTCCGATTTTCATGTGTTTGATGCTC 235715 29 100.0 37 ............................. ATGAGAGATTTACAACTTAAAGGTTCTAATGAATTAC 235781 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 235846 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTATATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTAAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 478971-479988 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000001.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 478971 29 100.0 36 ............................. TTTGTACTTCCGCTTTCGCTGTTGACCCTGCTCCTT 479036 29 100.0 37 ............................. CGCTTTCAGTAGCTGTCGTTTCGTCTGGAATATTAAA 479102 29 100.0 39 ............................. TAGCTTGATAATAACCACCCTCCATAGGATTATCAGATG 479170 29 100.0 37 ............................. GATGACATGATAGTATTAGCTAATACAGAAGTAAAAC 479236 29 100.0 37 ............................. TTTTTTTCATCATTTAAAACTTCAACTATCTTATAAT 479302 29 100.0 36 ............................. AATATTATTGCTTTTATATTTTTTAAATTTATACTT 479367 29 100.0 37 ............................. TTGCATTCTCCCAACCATTCTAGATATTCTCCATAGC 479433 29 100.0 38 ............................. GCGCAAACATTACCACTTCCACCTTTTCCAAATAAACC 479500 29 100.0 38 ............................. AGCCTTGTCTCAATATGAAAGAGATTTAAGAATGCCAG 479567 29 100.0 36 ............................. TGAGTTAATAGAAAATTTAAATACTAATGAAAAAGT 479632 29 100.0 37 ............................. AATTTTTCGAGAGTCTCAATTTACAGAAGAAATTGGA 479698 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 479763 29 100.0 38 ............................. TCGGTTTATTCGTATTATATTTCTATAATCTTATTTCA 479830 29 100.0 36 ............................. CTTGATGATTGGCGAGAATACTATATTTGTTGGTCA 479895 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 479960 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 16 29 99.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAATTATTACATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAG # 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 : 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 1 44898-46230 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000016.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 44898 29 100.0 38 ............................. ATACGTTACAGCAGTAAAAAGACTAACAGGAACAAATC 44965 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 45031 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 45095 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 45160 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 45226 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 45291 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 45356 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 45423 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 45489 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 45554 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 45619 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 45684 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 45750 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 45815 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 45881 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 45947 29 100.0 35 ............................. ATTGGAACATTTAGAAGTATTGGTGCCAATGAAAA 46011 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 46077 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 46143 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC 46201 29 69.0 0 AC..........TA...CAT.T.C..... | T [46207] ========== ====== ====== ====== ============================= ====================================== ================== 21 29 98.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACATATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAAAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAGTAGAAATTAAAAAACTTGATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # 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 1 17704-18195 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000003.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 17704 29 100.0 37 ............................. GAATAAAAATAAATCAAAAAACTCACCTCAAACTTTA 17770 29 100.0 37 ............................. ATACTTTTCACTATGAGTTGCTAATAAATCCTCAAAC 17836 29 100.0 36 ............................. TTGAACTTTCGAACAGCAGTAACAAGAATCTTATCA 17901 29 100.0 36 ............................. TGAAAAACTAGTTAAAAACTGCATCAAAGTATTGAT 17966 29 100.0 38 ............................. ATTAAAAACATTTATTCTTTCATAGTTTGATTTTACTA 18033 29 96.6 38 ..................A.......... ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 18100 29 100.0 38 ............................. CCATCTTTTATTGCTTTACATAAATTTATATTACTTAT 18167 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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 : 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 [0-4] 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 2 109069-109294 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000003.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 109069 29 100.0 37 ............................. ACCGCTTTACCTGCTGTAGTATTTAAAGAACTAATAA 109135 29 100.0 36 ............................. CCTTATACACGACATTATAATATAAGTACGTTTTTA 109200 29 100.0 37 ............................. TGTTTATCTTTTCATTGTTCATGTACATTTCATTGAA 109266 29 89.7 0 .....................C.TA.... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 97.4 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGTACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TTAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTGTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATT # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 3 109897-110716 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000003.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 109897 29 100.0 36 ............................. ATAACATATGAAGGTATGGAACAGACAAGTAAACAA 109962 29 100.0 36 ............................. CGCATTTGTAAGAGTTGACTTTATATTTTCCCAAGG 110027 29 100.0 39 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAAT 110095 29 100.0 37 ............................. TTTGTTGTTGTACAAGGGAATGTAACTAAAGATGTAA 110161 29 100.0 36 ............................. GATAATTGCTATTTTACGAAAGGTACGGTTGTAATT 110226 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 110292 29 100.0 38 ............................. ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 110359 29 100.0 37 ............................. CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 110425 29 100.0 36 ............................. CCAGTCATGAAACCAAAAGAATTTAGACCAGATTCA 110490 29 100.0 38 ............................. TTTTCATCAAGTATATTTATTGTTAATTGGTCTGGAAA 110557 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 110623 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 110688 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ======================================= ================== 13 29 97.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGATGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTACTTAAATGGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAAAGATATAGCTGAGGTAGTGTTTTACGACGCTAGCTTCAATAAAATTTTATTTGAAAAATATTCCAAAATAGCTTGACTGTAACTCGTTACAATGTTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGAGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAAGAGAAGAATCTAACTAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTT # 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 : 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 4 114179-114467 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000003.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 114179 29 93.1 37 .AA.......................... ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 114245 29 93.1 37 .............T.A............. CGATTTTATTATAGAGTAGAGGAAGGGCTTGTAAATG 114311 29 89.7 35 .............T.A............G TATATGGACATTAAAAACCCATTTGACTCTTATAA 114375 29 100.0 36 ............................. TGTTGTATTTGTGGAAGTGAAAAGGGACTTATACCA 114440 28 82.8 0 .............T......-.CT....A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 91.7 36 GTTTTATATTAACAATGTGGTATGTAAAT # Left flank : ACACAATGTCTAATAAACCAGCATTTCAAGCAGTTAAACAAATTATAAGAAAACTTGATATTAAAGAAGATGAAACGAAAACAGTACTAGAAACCAATGGCTCTTGGACTGGTACTGTAACAAAATATTCTAATAAGGTTACAGAAAAAGTCAAAGTGTGGTTGAAAGAAAATAATAATCCTATCTCAATCAAAGGAGACAAGAAAAACTACTATATATTGTATAAAAATAATTAGATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATGGATAGAATAGAACTTATCAAAGAACTTGGAAGTATCTTTGAAAAAATGAAAAATGAAAATCCAGATAAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAGAAAAGAAAGAGAATAAATAATATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATGGATATAGA # Right flank : ATTAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGGTTATTTGGAGGTAAAGAACCATGCAGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATTTATGTAATAATTGTTTTATTAATTTCACAATATTTTCTAGAGAAAGATTAAAAGCAACTAGTGCAATGCAAGTATTAGCTGACCATGAAGGGATAAGAAAATTTATAAATTTTTCTAAAACAAACAGAGAACTGTTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTGTATCCATCGACGAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAAAATGTATATGCAACTGATGAAATTATGCAATTTGAACTTTTGGAAGATGGAGA # Questionable array : NO Score: 3.66 # Score Detail : 1:0, 2:3, 3:0, 4:0.59, 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 : GTTTTATATTAACAATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [4-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 5 285154-286891 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000003.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 285154 29 100.0 36 ............................. GAATTATTAGGAACATAAACATCCAATCCATCTTCT 285219 29 100.0 37 ............................. TTTCTAACATCCTGTACAGTCGTTTCTTGCCATGCGG 285285 29 100.0 37 ............................. CGATTTAGCTCTACCAACAACAATTACAGACTGCGAA 285351 29 100.0 36 ............................. TATTACAAATCCAACTGTTATACCTAATGCACTCGT 285416 29 100.0 35 ............................. AATACTTTATCTATTTTCAATCTTTTACTTGCTTC 285480 29 100.0 39 ............................. TAGCAGTATTTAGTGTGTGGGCTAGTCGTGTTTTCGATA 285548 29 100.0 37 ............................. TTAAAATACTTTTTTTAACTCCGTCAACTTCAACATC 285614 29 100.0 37 ............................. GTGCAAATAATAGTGCCAAGTTTGGTGGTATAACATT 285680 29 100.0 35 ............................. AAAGAGGTGATGTCTACTTTTAGCTTTGAAACATA 285744 29 100.0 37 ............................. AAATTTTTAGCACTCTACACCATCTCTAAATATTTGG 285810 29 100.0 36 ............................. GTCTTTTATAACTAGGTCTATTGAGCTATTATTTGA 285875 29 100.0 37 ............................. GATAATTGCTATTTTACTAAAGGTACGGTCGTGATTT 285941 29 100.0 38 ............................. TCGCTAGGTTTTATATCTGCTTTATTAGTATTTTTAAT 286008 29 100.0 38 ............................. TATATTTTAGATGTTAATGTTGCAAATACAAGGTTCAC 286075 29 100.0 37 ............................. AAGCTCCAAAATAGCTATAATTGGGAACAGCTCCTTT 286141 29 100.0 36 ............................. TGATTTACTGTTAGACCACTCCTGCTTATCTCTACA 286206 29 100.0 36 ............................. TCATCCAGCAATTTTTTTATTATAGCTTTCATGGGT 286271 29 100.0 37 ............................. GTTATCTTCGCCAATTGGGTTAGTTGAACAAATTATA 286337 29 100.0 37 ............................. TATTTTTTCAACTCATAATTTGCACACTTAACCTCTA 286403 29 100.0 36 ............................. AAACTAATCACCACCCCGATTACTCAATTTATAAGT 286468 29 100.0 37 ............................. CATGGACTTCTTTGAAGATTTTACAAGGTCAACAATA 286534 29 100.0 37 ............................. CTCAGTATGTATTTATAGTGCTTTTGTCAGTTGTATG 286600 29 100.0 36 ............................. TTAGAAATTTTACTTGAAAATATTATACTAAAGGAT 286665 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 286731 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 286797 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 286863 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 27 29 99.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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: 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 [68.3-73.3]%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], // Array 1 91376-90883 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJVJ010000009.1 Clostridioides difficile strain lsh35, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 91375 29 100.0 38 ............................. CTTTCTAGTATTATTTGAGCTAAAGAAATTGAAGCTGG 91308 29 100.0 38 ............................. AAAATTTTAGCTACTTCAATTTTATTCATGCTTTTATC 91241 29 100.0 38 ............................. AGTAATATAAACGTTTTTGCTGATAAAACAACTTATAA 91174 29 100.0 37 ............................. ATTTTTCTACAGTCTTCGTCAATTTTGAAAGCACCTC 91108 29 100.0 37 ............................. GAGGAAATGTTTAATATGATGAAAAATGGGGCGGAGA 91042 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 90977 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90911 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAATTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGTTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # 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: 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 [75.0-63.3]%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], //