Array 1 97551-97257 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000012.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 97550 29 100.0 36 ............................. CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 97485 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 97419 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 97352 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 97285 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 97.9 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCTATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-68.3]%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 24219-23928 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000003.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 24218 29 100.0 36 ............................. TATTCTGTAAATGTTGGAACGATAAATATATATGAT 24153 29 100.0 37 ............................. GTGGGAAAAATTATAAAAATATAAAAGTACTTAACAA 24087 29 100.0 36 ............................. TAGATGAGGAGAACAGGAAAGCAATAGAGAAAATTA 24022 29 100.0 37 ............................. ATAAATATCTCTGCAACTTGCATATTTTATTTTTATT 23956 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : AAGCACTGATTTTTATGTGGTTGTATTGTATGAGAGTTCTGGAATAGATTCATATTGGGTTTTTATAGATACTGATACATGGACTGTTCATGATATACAGCGTTTAAATCAAAATGAAGAATTAGTATCATATCATGATGTAAACCCAAATACAGAAGCAGATAAGCATTATAATAGAGATGTTGATGACGTTAATATTATATTTGTTCCATCAGAAAATAATCCTTTTGATAATGATGTAGATGGAATAAATTAAATATTTATTATAAGGAGTTAAACTATAAATTGATATAGATATTTAAAAATAATGTATTTATGATATAATAAAGCTATGGAAATTTTGCAGTGAGCGATATTTATGATAAAATGGGGCTTAGCAGTTGAAATATAAGGCATTGAGGGTGTATGATAAGTGTTATCTTTTGCACTACTGCCTGCTCACTGCAAATTTAAGAGAGTTGTATATGCGTAGGCATTGAAAATACTCAACTTATTTTGGA # Right flank : AATTTTTAAATAATAGAAATAGACTAGTATTTAGCTAGTCTATTTTTTCTTTTCTTCTTTTTAATTCTTCCATTATGAATACTGCTGCGACTATTAAATAGTTAACTTCTAAACCAATTGCTAGGTCAACTATTGTTGTAACAGTAACATTTTTATAATCGCCCTTTTCTAACTTGGAAATATAACTTTTGTGATAGTTAATTTTTTCTGCAAGTTCTAATTGTGTTAAATGTCTCATTTTTCTCAGTTGTCTTAACATAAATTTAAATCACCTTTTAATATATTTTTTAGTAAATTCAGATAATTATATTATGTGCATTTTTGTGGGGAAAAGTTTCCTATTAGTCGATTTTTTTGTTGGAAATTTGTGCTAAAATATAAGTAAGAAATAACTCTAGCTAGATAGAGAAAAAATAGAAAATTGTAGATTTTGATAAGTCTTGCAATTAAATTTATGCAAATGTAAGCACTTTTTAAAAGATAGGGGATGGTTGTAATTA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [81.7-68.3]%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 2 42787-42293 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000003.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 42786 29 100.0 36 ............................. TTTGTATCCGTATCATATCCTGCATATGCAAACCAT 42721 29 100.0 37 ............................. CATCTAAAAACCTATTACTAGCTATATATTTTACATT 42655 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 42587 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 42521 29 100.0 38 ............................. CTGCTTTGGCTTTTGGTCGTATAATGCTCCTTATAATA 42454 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 42388 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 42321 29 86.2 0 ............T......T...A....T | ========== ====== ====== ====== ============================= ======================================= ================== 8 29 97.9 38 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : GTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGAT # 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 : GTTTTATATTAACTATATGGAATGTAAAG # 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 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 11451-10770 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000027.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 11450 29 82.8 36 AGA............A............T ACATATATTAATGTCTTTTCCAGCCGATTTTATACC 11385 29 96.6 37 ...............A............. CTTATTAAATGATGTGCAGTTTGGCTTACATTTCCAA 11319 29 89.7 36 A..............A....C........ TTGAAAGATAAAGGAATAAAAGCTACTACTATAAAG 11254 29 96.6 36 A............................ GTTTCTTAAGATAATATTATCAAATCCATCTTTAGT 11189 29 100.0 36 ............................. AGCTCTTTTGAGATAAACAGTAAAGCAATAGTAAAT 11124 29 100.0 38 ............................. AAAGTGTAAGGCATTTTTTCAAACTGAGCATTTGTTTC 11057 29 93.1 34 ...........................GT TTAAATGATGCAGCAAAAGGTGCAAAAGACACAG 10994 29 89.7 36 A..............A............T TAAATCATCAAGCCCAAGTTTTTTCTTTGCATCTTC 10929 29 93.1 37 A...........................T ACAGCTCCCAAGACATACAACGAATCTGTAACATCAG 10863 29 100.0 37 ............................. ATATCTACATCAAGATAATCGGCGATGCTTTGTATTA 10797 28 86.2 0 A...................-..T....A | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 93.4 36 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : TTTTGTGGCAGTTTGTGAGATTATTAAGAAATTAGATATTAAAGAAGAAGAAAAACTCATAGTATTAGCAAATAAGGATAATTGGAATGGAACTACAACAAAGTATTCACAAAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAGAATAATAGACCTGTTAAAATTGCAGGTGAGAAAAAGAATTTCCATGTTGTATATAAAATTGAGTAAATTCTATTGTATTAAATAATATATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATGGATAGGATAGAACTTATTAAAGAACTTGGAAGTATCTTTGAAAAGATGAAAAATGAAAATCCAGAAAGATTTTATAGATTTGTAAATTTAGTGAAAGAAGAAGGTAGGAAAAAAGAAAAGAAAGAGAATAAATAATATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATGGAAATAGA # Right flank : TCAAAATACTAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATTGTACTAGGGGGATTTGTTATGTTTTGTTCAAACTGTGGTTATGAGATAACTGGTGCAGGAAAATTTTGTTCAAACTGTGGAACACCTGTATTAGTAAATACAGTTAACAATGATGATTTCTTTATAAATATTCATGGAAAAGAATTAAATCTGACTAATATTTATAAAGAAACTAAAGGAGATAAAATTTTAGCGATTGATGTTGTAATGAGGCTACTAGAGCTAGACATAAAAGAGTGTAAAAATATTATATATCCAGCTTTTAAAGAATTAAAAGAGTTAAGTGAAAAAATAAATATTGAAGAAGAAAAAGACGAATTAAGGGAAGATAACTATAAAAAATTTAATGAATTTGAGAATGATAATGTAGCACGTTGCCCCAAATGTGGTT # Questionable array : NO Score: 5.38 # Score Detail : 1:0, 2:3, 3:0, 4:0.67, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.45, # 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 : TTTTATATTAACTAAGTGGTATGTAAA # 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:81.48%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [3-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 13701-13004 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000027.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ============================================ ================== 13700 29 100.0 37 ............................. AAGAGGGAGAAAAAAACTTATTCAGCTACAGAGATAG 13634 29 100.0 38 ............................. TTAAAAATACCTATTTCGTTTCAAAGGTATAATGGAGA 13567 29 100.0 38 ............................. CTTTGGGAATCTATGCAAAACATAAAGAATAAATTTCC 13500 29 100.0 44 ............................. AACACAATAACACAATAATGCAAGAACTTATAAAAGAGTTAAAA 13427 29 100.0 36 ............................. TTTGTTTATCTTTAATTATATTATAGTCTTAAAAGA 13362 29 100.0 38 ............................. AAAGTATACAAGCTTCTTTCTCTGAAAGAATCTATTCC 13295 29 100.0 37 ............................. CCTTATACACGACATTATAATATAAGTACGTTTTTAA 13229 29 100.0 37 ............................. TGACAAACAGATTTTGATTCAATGGCTAAAAAGACAG 13163 29 100.0 37 ............................. AATTTAGTATCTGGATATGATGAAGAAGGCAATCCAA 13097 29 100.0 37 ............................. ATAAATGTATTTCATACAGGAATATTTTTCTGCAACA 13031 28 72.4 0 ......T......A..G.A..-.AA...C | ========== ====== ====== ====== ============================= ============================================ ================== 11 29 97.5 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATGATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCATTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAATTGCAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCATTACTCACGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGATATTGGAAATACTAAGTTTATTTTGGG # Right flank : TAAATAAACATAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAGAAATAACAAAATAGAGCATTCTCCCCGACCAAAGATTGAATGCTCTATTTCCAACAAAGAAGTTAGCACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATGATTTACAAATATTTAAAAATGAAGATTTTGGAG # 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 : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 79333-79107 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000005.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 79332 29 100.0 36 ............................. GTTGCTGTTGCTATTGTCTTTGCTAGTTCTTGCATC 79267 29 100.0 37 ............................. TCTAGACACAACAGAATAAACATAATATATAAGCATA 79201 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 79135 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 92.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : AAATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCACAGGCAGGAATGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGATTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAACTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGA # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 5.47 # Score Detail : 1:0, 2:3, 3:0, 4:0.61, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-66.7]%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 288325-287438 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000005.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 288324 29 100.0 37 ............................. TTCATTGACCAAACAGTTTGCTTACATCTAAGAGAAA 288258 29 100.0 37 ............................. GTAATGACACATAATAATATCTTTTTCATTTTCTCCC 288192 29 100.0 36 ............................. ATTTCAAAAGCTATTTGTTTTTTAGTTATTGTGTAT 288127 29 100.0 37 ............................. GCAAATGGATTAAATGCAAGATTTTTAGTATATTTTC 288061 29 100.0 38 ............................. GAGGTTATTGGCGTTGTTTCAACTCTTGCTGTTGCTAG 287994 29 100.0 37 ............................. GTAGTTAATACTGTTTTACCATATTCAAAAGAACAGG 287928 29 100.0 37 ............................. AGCAAGATATTGCAAATATTTATATACACCAAAAACG 287862 29 100.0 36 ............................. CAAATTTGTTGCTACATTTTCTTTTTTTTGATATAC 287797 29 100.0 37 ............................. TCAAAACTCGCTTTCTTATTATATTGCTTACAGAATT 287731 29 100.0 37 ............................. AAGTGTGGACAGGAAAGAATAAATTTATGTAAAATTG 287665 29 100.0 37 ............................. TGACATCAGCATCATATATTTCTAAATCTTCTAATTC 287599 29 100.0 38 ............................. TTTATTTGTTTTTGTAATCTGTAATAAGTTAATATTAA 287532 29 100.0 37 ............................. TGTAGATTGGCTTTATGGTATAAATCTAACAAGATTT 287466 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTAATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCTAGACTCAACTCTCTTAAACTATTTTCAGATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAAGCTCTTATTTTTTCTAAGCTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCCTCACATATATGATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGA # 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 : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 49293-49521 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000006.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 49293 29 100.0 38 ............................. ACGAGATACAGACCTATTGAAGAAGCTATAATAACTTC 49360 29 100.0 38 ............................. CCTAAAATATTTTCAATAGCATATTTTACTCTTTCCCA 49427 29 100.0 37 ............................. TTAAGATTTTATTTAGCTCATTCTCAAAAATAATTTT 49493 29 89.7 0 .........T........T.........C | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 97.4 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATGTTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCACTATTGCGTGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : CTTTTTATTACATTAAAAGCAATTCTCCTAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGGTAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGCTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATACTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # 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 : 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 [0-3] 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 [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 114444-115989 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAJWN010000007.1 Clostridioides difficile strain lsh01, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 114444 29 100.0 37 ............................. TTAATTTATCTATAATTTAAAACGGTGAATTACATAT 114510 29 100.0 37 ............................. TAAAGAGGGGTACTTCGTACTTTTACCACTCAAACTA 114576 29 100.0 38 ............................. AGGTCAAGCATAGATTTTGCAACTGGAAGATAAGAAGA 114643 29 100.0 39 ............................. GTGCAATTCCCATTTTTAGACTGAACTTTAGTTTTCCAA 114711 29 100.0 37 ............................. TAGCCTTTTTTTATTTTACATTATTGTTGATATATAA 114777 29 100.0 36 ............................. TTGACTTAGCATTATTTGTGCGGAACTTTAAATAGC 114842 29 100.0 36 ............................. AAATTCATGGTTGCGGGTGCAGAAAAAAACATAAAA 114907 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 114973 29 100.0 37 ............................. TAGGTTGCATAATGATATATATATTTATATAAGTATG 115039 29 100.0 37 ............................. TTGTAAAATGTAAATAGCATATTAATTTTTCTTTCAC 115105 29 100.0 37 ............................. TGGAGCATTATGTTTTTAGGTTACGGAGCAACATTTA 115171 29 100.0 37 ............................. GGTGATAGTGGAAGTTTTACTTATACTTGGCGTGCTG 115237 29 100.0 38 ............................. TTCAGAATACTTAGCTCCTGCGCCTATATCGTCTGAAT 115304 29 100.0 36 ............................. AAAGTTTTGCGCATTGTATGTGTGCCTAGATTATCT 115369 29 100.0 37 ............................. ATGTCCCCACATCAATTTTCCTCCGCATGAAAAAATC 115435 29 100.0 37 ............................. TTTAGAAACAACAGAATAAACATAATATATAAGCATA 115501 29 100.0 36 ............................. CTATATCGCATATTCTTTTATCTAGGTCTTCTTTTC 115566 29 100.0 37 ............................. ATAATCTTGTTATAGACTTTACTATTGTTGTAATAGA 115632 29 100.0 35 ............................. CTTACCAGACCCTGCAACACTAAATGACTTACATA 115696 29 100.0 37 ............................. TCATCAGTATTTGTAAAATGCTTTAACTTATCATAAT 115762 29 100.0 39 ............................. TTTTACTTTTCCTTTCTATGTGTCCAATTCGGACACATT 115830 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 115896 29 82.8 36 .C.............CA..A...A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 115961 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 24 29 99.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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 : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-75.0]%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], //