Array 1 52562-53378 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000001.1 Clostridioides difficile strain LC1-14-0802 NODE_1_length_298941_cov_16.9491, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 52562 29 100.0 38 ............................. CAGTTAGGACATGATTTAGCATTTGATGCTATTTCCTT 52629 29 100.0 36 ............................. TTAGAATATCATCAAAAGAGTTATAAACATAATACT 52694 29 100.0 37 ............................. AGGGATGATTTAAAGACTTTATTTTCAGAGCAAACGG 52760 29 100.0 36 ............................. CTATTTGCAATAATACTATTATTTTGGATACACAAA 52825 29 100.0 37 ............................. TGGGCTAGGTTTTACTAAGACAAAGATACTAAAGTCA 52891 29 100.0 37 ............................. AAATCTACTCCAACAATAACATCCATGAGTGGGTCAA 52957 29 100.0 37 ............................. TTCTATTTAACTTCATAAGAATACTTTTCAAGTTCTA 53023 29 100.0 36 ............................. GCAGAAGAAACAAGTTTTAAAACGATAAAAAAATAA 53088 29 100.0 36 ............................. TATCATTAAAACGACGAGGAGAAAACTTTATTGAAC 53153 29 100.0 36 ............................. AGATATTGGACAAATTACATGAAAGTTACATGGTTA 53218 29 100.0 37 ............................. TGCTCCTTTTTCACGTTTTGGAATTTTCAAGGTGATG 53284 29 100.0 37 ............................. TTAAATTTATAGAAATTCTTATAGCATCAGTTGTTTC 53350 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGCTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAACTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACTGTATTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAACTACCAGATGCAGAATTAAA # 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 1 3362-3983 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000037.1 Clostridioides difficile strain LC1-14-0802 NODE_37_length_7012_cov_17.9894, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3362 29 82.8 37 .AG...T.........G...T........ TTTCTAAATGGTGCTGGAATAGATGAAAAGGCAAAGT 3428 29 100.0 37 ............................. TTTGAATAATAAAAATTAAATCTCAATCTTATTCCTA 3494 29 100.0 38 ............................. ATCTATGGAGCCTATCAAGGTTGGAATTTACTAAATGC 3561 29 100.0 37 ............................. CAGTCTATATCTATAATTCCTTCTTGTTTATATATCT 3627 29 100.0 37 ............................. ATTTGTCTTGATGTGAAAATATTAATTTCTTTATCAT 3693 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 3759 29 96.6 37 ......T...................... CGGACAGTAGTTCGTGGGTAACTATGTCCATTTTACA 3825 29 86.2 36 .C....T.........G...T........ TTCCAATTATCCTTATTTGCTAATACTATGAGTTTC 3890 29 89.7 36 ......T.........G...T........ GCATCCCAAGCTTTTCCATAATTAAATCGTTCAAAA 3955 29 79.3 0 A.....T.........G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 93.5 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : CAGTTGGCTGTTTGTGAGATTATTAAAAAGATAAATGTAGAAGATAGTGAAGTTAAGGGAGTTTGGGAAACTAATGGCTCTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAGAATAATAGACCTACTAAGATACAAGGTGAGAAGAAGAATTTCCATATAGTGTACAAGATTGAGTAAATTCTATTGTATTAAATAATTTATTTTAGTTTAGTTTTGGGGGGATTAATATAATGCATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTCTGAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTGTATAGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATAGAGATAG # Right flank : TTAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTAATATAGTATAATATTGTTAAAGAATATAATTTAGGGGGATATTATATTATGAAGAAAAAAGTATGTTTTTTATTTTCTATTCTTATAGTTATCTGTTTAGCTATTGTAGGATGTTCTAATTCAGAAAGTCCAGAGGAGAGTAGTAAAAATAATGAACCAAAAAAAGAAGAAAAAAAGGATAAAGAAGTAGTCATAGGAGAGAAAATTATTTCAGATAAAATGGAAATCACTATTAATAATATTGAATTCTCTTATGATGTTTTACCAAAAGTTAAGGAAAGTTTATATACACATTATCCTGCTGAGTCAGGCAAAGTATATATTGATATTGCTGCTGATATAAAAAATACTCAAAAACAAGAGTTAAATTGTTCAGATTTACTAACTATTGAAGCAAATTATAATGATGGGTATAAAT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.68, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.92, # 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 [5-14] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 2961-2605 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000035.1 Clostridioides difficile strain LC1-14-0802 NODE_35_length_11021_cov_18.3959, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2960 29 93.1 37 .AG.......................... TTTGTATTTGTATCTACACTACCTTGAACCTCAACTT 2894 29 100.0 36 ............................. AAAGTATCTCTAAATCCTATTGCTTTTTCGGTTAGA 2829 29 96.6 36 ...............A............. CAAAATGATGCTTGTTATCAAAATAGGTTGTATTAT 2764 29 93.1 36 A...........................T TTCGGATACAGAATTGAAAACAAACATCTAGTAATT 2699 29 96.6 38 ............................T GTTGGTTCAATTTCCAAATGACTTAGACAGTGATTATG 2632 28 86.2 0 ....................AC.-....A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 94.3 37 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : CAGTTGGCTGTTTGTGAGATTATTAAAAAGATTGATTTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAGACTAATGGAAGTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAAAATAATAGACCTACCAAGATACAAGGTGAGAAGAAGAATTATCATGTGGTTTATAAAATTGAGTAAATTTATCAGTTGTATTAAATAATTTAGTTTAGTTTTTAGGGGGATTAATACAATGTATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTATGAGAAAAAATTAGAGAAAAATAAGTAAATAATATGGATAAAGCACTTGGATATTTCACTGTTTCAAGTGCTTTGTATGTTAAAAAATGGTATAATATAGGGAA # Right flank : TTAAAAATACTGAAAAACACTTACTCAGGTAGGTGTTTTTTTATTGAAAGGAGGTGATTATAATGTAAAAATTTTACTTATATAGTATAATATTCTTATAAAATTATGTAGGGGGTAATAATATTATGGGGTTATTTGGAGGTAAAGAACCATGTTGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATCTGTGCAATAATTGCTTTGTTGATTTTACAATATTCTCTAGTGAAAGATTAAAAACAACTAGTGCAATGCAAGTATTAGCAGACCATGAGGGAATAAGAAAGTTTATAAATTTTTCTAAGAAAAATAGAGAACTATTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTATATCCATTGATAAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAAAGTGTATATGCAACTGATGAAATTATGCAATTTGAACTTTTGGAAGATGGAGAG # Questionable array : NO Score: 3.88 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # 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 : GTTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:80.00%AT] # Reference repeat match prediction: 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: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-70.0]%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 5302-4548 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000035.1 Clostridioides difficile strain LC1-14-0802 NODE_35_length_11021_cov_18.3959, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5301 29 100.0 36 ............................. TGTTCTTTACAATTTTCAAAATCCAAATTCATTGGA 5236 29 100.0 37 ............................. GTTGTAGCTCCTATTTCTGCTGAACTTTTTAATTTAA 5170 29 100.0 37 ............................. CTGAGTCGGAAGCATATAATAAGTAATATCAAGAATA 5104 29 100.0 37 ............................. TTATTCTTTTGTATAATTCACTCTTATGTTTAATTTT 5038 29 100.0 37 ............................. AATGCAGAAAAATTTGAAAGTTGGGTATTTGATGAAG 4972 29 100.0 37 ............................. CTTAACGAAATACTTATTCAATTTGCTTATTAATACT 4906 29 100.0 37 ............................. TATCTTTAGCACTGTAATTTTTAGTGTCAGTTGTATC 4840 29 100.0 37 ............................. TCTATAGAATATGGTACACCATAATAATTACAATAAT 4774 29 100.0 37 ............................. ATGTTCAATTTTGCATTTGCACTTGTAGACCCTGTTG 4708 29 100.0 37 ............................. AGATTTTATTATAGAGTAGAGGAAGGGCTTGTAAATG 4642 29 93.1 37 ...............T....T........ GAGATTTGTATGGAGGCTATAAAACAAAACGGATTAG 4576 29 79.3 0 ......T........T.....T.CA...C | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 97.7 37 GTTTTAGATTAACTAAGTGGAATGTAAAT # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTACGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGTATGATAAGTGTTATCATTTGCACTATTGGTCGCTCACTGCAAATTTAAGAGAGTTGTATATGTGTAAGTGTTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGATTGGGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAGAAATAACAAAATAGAGCATTCTCCCCGACCAAAGATTGAATGCTCTATTTCCAACAAAGAAGTTAGCACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATCAATTTGAGGAGGAATTTATATGAAAACTAATTTAGAATTAATCAAATCAGAAAACTTTGGAG # 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 : GTTTTAGATTAACTAAGTGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 6266-5904 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000035.1 Clostridioides difficile strain LC1-14-0802 NODE_35_length_11021_cov_18.3959, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 6265 29 100.0 38 ............................. GTACCTGCATGGTGAGTGAGGTTACCAAGCCCCACCCG 6198 29 100.0 37 ............................. CTAGGTCTTAAACTTGCATTTACTAAAGACATATCAT 6132 29 100.0 37 ............................. TATTTACTATTTTCACAGTTTAAAGAAGTATAGTAAC 6066 29 100.0 38 ............................. ATCGCCTTCCAGATTACTTTTGTATATGAGGTCAGCAA 5999 29 100.0 38 ............................. TCAGTTTTTCGTTTGATTGGCTCTATCTTTAAAAAAGA 5932 29 89.7 0 .....................C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 98.3 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATATTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTGTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTACGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTG # 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 29045-29965 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000003.1 Clostridioides difficile strain LC1-14-0802 NODE_3_length_218843_cov_15.5321, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =========================================================================================================================================================================================================== ================== 29045 29 75.9 203 T......TA....A..T.....C...T.. TCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG CC [29055] 29279 29 100.0 35 ............................. GCATATTGCAAATAGTTTGCTACTTCTTGCGAAAA 29343 29 100.0 37 ............................. TTTTTAAAAGAGGCTGGTTATTTAGTCCAGCCTCTTC 29409 29 100.0 37 ............................. CCTCCAGCTCTATGTGCCTCATTCTTATACTTCCAAA 29475 29 100.0 37 ............................. TTCGTTGACGCTGAACTAATCGAACATGTTGCTTTGA 29541 29 100.0 37 ............................. AAGGTGCAGAGGTTACTACAAGCGATACATGGGAAGA 29607 29 100.0 36 ............................. GATAAAATAATTGAATATGTAGCTTTCGATATGTGT 29672 29 100.0 37 ............................. AAGAGTTTTCTTAAACTAAGAATTGTTTTAGAATTTC 29738 29 100.0 37 ............................. TCTAGCATTGCACCTGTTTCAGCATCGAATTTTTTAC 29804 29 100.0 38 ............................. CTGTATATTTAGTAAATGTTTGTTCAAAGTTGGCAAAC 29871 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 29937 29 72.4 0 ......C.........AAT....AG..TA | ========== ====== ====== ====== ============================= =========================================================================================================================================================================================================== ================== 12 29 95.7 52 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TCGTTGTATTGACAATGCTCCTACGGAAGGAATTTGGGGAATTTTAAAGGTGGAAATGTACTATTTAAGGAAATTTGATACATATGAACAATTAGTTAAAATAATAGAGAATTATATATATTACTATAATAATTTTAGATATCAAAAGAGATTAAATTCTATGTCTCCACTTGAATTTAGGAAATATTTAAGTACAGAGATAGCATAATTTATTTTAAGTAGCTCTAAAAAAATTTAAATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAACATACTAATGATAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGGGCAGTATCAATAAATATATTGTCTAAATTTTTTTTAGGAACTAGTTGACTAGCCATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTAGTCATATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATGCTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-75.0]%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 2 139158-139846 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000003.1 Clostridioides difficile strain LC1-14-0802 NODE_3_length_218843_cov_15.5321, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 139158 29 100.0 37 ............................. TTGTCATAGTAGCGACTTATTACAAAGTATTTTTCTA 139224 29 100.0 37 ............................. TACATCCTCATTAATTTCTTTGCTATCCCAAACAGCA 139290 29 100.0 38 ............................. CTCTTACGCTTTTCAATCACTTTTTCCTTGCTAAAATT 139357 29 100.0 38 ............................. TTGAAATTTCAAAGATTAATCGGACGCATGCAAGGAAT 139424 29 100.0 36 ............................. TTGGAAATAAGTATAAAGACAGTGATATGGAAATGG 139489 29 100.0 37 ............................. TATCCATTTCATATTTAGATAAAATCTCTTTAAATGC 139555 29 100.0 37 ............................. ATGTTATTACATAAAAATTCTTCATCTATAACTTTAA 139621 29 100.0 36 ............................. AAAATAAGGGTTTAATTTCCCTGGTGTCGAGGAATA 139686 29 100.0 36 ............................. TATATATTAGATGTCAATGTCAAGGATACAAAATTT 139751 29 96.6 38 .......................T..... CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 139818 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 98.1 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGTGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAGAATGATATATTAAATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTCTTGTTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTGTCAGTGTTTTATTATAAATAGCTTATATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGTTAATGATGTTATTGCAGTATCTAATCTTATTATTTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCATACTTTAACTCTAATTTATCTAAGGCTTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAACTTCCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTATGATGAGAATGG # 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 : 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [71.7-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 120543-120769 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000011.1 Clostridioides difficile strain LC1-14-0802 NODE_11_length_173520_cov_15.2673, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 120543 29 100.0 37 ............................. TCTAGCAAATTTAAAATTATTAATCTTTCTATGTTTA 120609 29 100.0 37 ............................. ATGACATTGACCACGAAAGATATATTCAAGTCCAAAA 120675 29 100.0 37 ............................. GGCATATTCCCATTGGTTACATTAACAGTCTTATATA 120741 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TACTATTATATATAACTGAATATCTAAGTGACATTTAAGAAAAATACGATACTTACTGACATAAAACTGAACATTATTTAAAGATAACCTTGATTATATTTTCAGAAGCTTCTTTATCCATATCATATAAAATAAGAAAATATCTATTCATAGTTATTTTTATATCAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAGATATGCAGGTGTTCTTAAATTGATAAATTATTCCATTTTATTTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATATAGCATTTTCTCCCCTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATCTGCTATTAATTCAAAATGGAGTTTTAAAAACAGGTTATCAAAACAGAGCTACATTTTATCAAGATAATTATTTTAATGGAGAAGATAAAAGTGATAAGATAAAATTTATAACTATAAAGATTTTTATATTTTTGTCATTACCATTGTGTTTTAATATACTATTCAACTATTTAACTTCTTAAATTATATTTAGATATAGGAGTGTTATGATAAAAGTAAGCTTATGTGTTATTTATATTAAATATAAAGTGCATATAGTGATAAAACAAAAGTTTCATATAAATGAAGAAAAAAATATAAAATGATTTATTTAACTACTTA # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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:80.00%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.00,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] 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 [4.87,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 194052-194211 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVF01000005.1 Clostridioides difficile strain LC1-14-0802 NODE_5_length_208537_cov_17.9672, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 194052 29 100.0 37 ............................. GCGAAAAAATGCTAATAGTAAAAAACTTACAAGTAAC 194118 29 100.0 37 ............................. ACGAGAACATCTTCCCCAGGAACTCCAATTAAATCGC 194184 28 82.8 0 ....................-.CAAG... | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 94.3 38 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ATAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTCAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTTTGATAAAATATGGCTTAACAGTTGAGATATGAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGCGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGAG # Right flank : TAGAGTAGTTTGAACTACTCTATTTTTTATTTAAAAGTATATTTTACATTAATTTTCTTCTTCTTAATTCTTCTTCATAATAATATCGACACAATTCTAAAAAATCTATTTCTAAAGCAAGTGATAAATCTATGATTGTAGAAATATTAATATTTTTGTATCTCTTATTTTCCAAATCAGAAATATATGCTCTACTATAATTCGCTTTTTCTGCTAATTCGTTTTGAGTCATACCTCTTTCTTTTCTTAGTTTTTTTAGCATATATAAAATCTCCTTTTATTAAATTTTATATAAGATAATATTTGTAGAATTATAAAATATATGATGTTATTAGCGTCATTATTTTATGGAAATTTATGGTAGAATATAGTTAAGAATATTAAGAAAATTTATTTTGAAGGTCTATAAATACCGACCAAATAATTTGTAAATTATATGTAAAAATAATGCAAAAAATTGTAAGAAAAAAATCAAAAATAAAATGATTTATTTTTAGAAA # Questionable array : NO Score: 5.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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:77.78%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [71.7-81.7]%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], //