Array 1 115433-113686 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000010.1 Clostridioides difficile strain LC3P-124-2 NODE_10_length_141550_cov_23.1498, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 115432 29 100.0 39 ............................. AAGCAACTATAGTAGAAGCAAAAGCGACAACAACTAAAG 115364 29 100.0 36 ............................. TTGGTTAACTTAAGTGCTATGAAAGGAATTAATGAA 115299 29 100.0 36 ............................. TTAAAGGTGCAAGTCTTAATACTTGTTACATGAGTT 115234 29 100.0 37 ............................. AACAAAGAACCATTTGAATCACGAAAACTAAAAAACA 115168 29 100.0 38 ............................. TTATTAACCTTATCAGAAACCTGACCATCCCAATTATA 115101 29 100.0 36 ............................. TCCATTTGTCTAATGCTTCTAACTCTTTTTTTATAC 115036 29 100.0 38 ............................. TCCAAAATGGGCTTGGAGTTAAGAGTTGTATAAGAAAC 114969 29 100.0 38 ............................. TAATTACACACTCCCTTTTAACGAACATATTTTAGATT 114902 29 100.0 41 ............................. AGACTCGACATAGAATCGGTTACTAAATCCGAGGGTTTCAG 114832 29 100.0 37 ............................. ACTAAACCTTTTTGTTTACTTTTATTTCTCATTTTAC 114766 29 100.0 37 ............................. CCGGATTTTTCTGCTTCGACTGTTGTTATTGAGACTT 114700 29 100.0 38 ............................. AGTAATTCCATGCAATCTTTTATATTGCTTTTTAACCT 114633 29 100.0 36 ............................. AGATATACAAGGTGAAAGTGTTGAAATTTCAATCTT 114568 29 100.0 36 ............................. ATTCTTAGATGTTATAATTTGTGTTGCATTTAAATC 114503 29 100.0 37 ............................. ACAATATTATTGTTCATTTCATTTAATAATTCTAGTA 114437 29 100.0 37 ............................. TTGTTTATACCTTTAATCTTTAAAATTAAATATAAAA 114371 29 100.0 37 ............................. CATTGTATACTAAGCTTGATATAGTGCAAAATGAAAC 114305 29 100.0 36 ............................. ACTAATTGGGTTAAACAAATGGATATAACTAAATTA 114240 29 100.0 37 ............................. CCAACCCTTCGCACGAATCCGTGCGACGAAATATAAA 114174 29 100.0 37 ............................. TGTAAAAATATTGCTTAGCATATTGATATCACTAACT 114108 29 100.0 37 ............................. ACAAGAGGTTTTTCAGCAATATATGTACTTCTATAAT 114042 29 100.0 38 ............................. TCATCAATATTAATTTTGGGAATATCAACATTTTTTGC 113975 29 100.0 37 ............................. GCGATAAGAGATTCGAGTCTTTTTACTGGGCTTAATC 113909 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 113843 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 113778 29 75.9 35 A...........TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 113714 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ========================================= ================== 27 29 97.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : AAAATGCACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAGAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGTTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [18-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-76.7]%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 1 30827-31120 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000023.1 Clostridioides difficile strain LC3P-124-2 NODE_23_length_76248_cov_19.1352, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 30827 29 100.0 36 ............................. CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 30892 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 30958 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 31025 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 31092 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 97.9 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCTATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [68.3-83.3]%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 23876-23586 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000024.1 Clostridioides difficile strain LC3P-124-2 NODE_24_length_73362_cov_21.501, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23875 29 100.0 37 ............................. CTTTGTAATGGTAGTGTATTTAAGATTGAAACATCAA 23809 29 100.0 36 ............................. CAACATTAGTAGTTGTCTTTATACACATAGCATCAC 23744 29 100.0 38 ............................. ACAGCTCCCAAGACATACAACGAATCTGTAACATCAGT 23677 29 89.7 34 ................G...T.......A GACTTATTTACAGCTTTATTTGCTAAATCAGAAG 23614 29 86.2 0 ................G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : ATTGCAGGTGAAAAGAAGAATTATCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTAGTTTAGTTTTGGGGGGATTAATACAATGCATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTCTTAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTTCACTGTTTCAAGTGCTTTATATGGTAAAAAATGGTATAATAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTCAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TAAAAATAATTAAAAAACACTTACTAATGTAGGTGTTTTTTTATTGAAAGGAAGTGATTATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGAGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCACTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGAGATTTAAAATTAACTGTTAATAGCATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCATACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCATTCACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTGATGTA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [80.0-70.0]%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 2 26097-25740 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000024.1 Clostridioides difficile strain LC3P-124-2 NODE_24_length_73362_cov_21.501, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 26096 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 26031 29 100.0 37 ............................. TTCAGTGAGAATAAGCTTTATTGTCGATGTAACACTC 25965 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 25899 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 25834 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 25768 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 97.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATAGGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAATAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGAAAATACTCAACTTATTTTGGG # Right flank : TAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAATTACTTAATTATAAAGTTGCTAAGTACAACTTTTTAGAATTATACAATATAAAAATGCACTAAAGTGATTGATTTTGCTCAAGTTGGTCGGTTGAGTAAAATAATTAGAAAAAAATGTTAAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAAAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAGAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGCTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 79629-78876 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000002.1 Clostridioides difficile strain LC3P-124-2 NODE_2_length_309774_cov_21.0375, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 79628 29 93.1 37 ........................G...G AGGTTTTTCAGAAGTATATGTACGTCTATATTGTAAA 79562 29 100.0 36 ............................. AAGGAAGGTGGAAGTCAATATGCATGGGTCAAATGG 79497 29 100.0 36 ............................. ACGAAATTAGAGTTTGAAATATATGACTACATAATA 79432 29 100.0 38 ............................. TTGTGTCACATCATTGTCACTTCTTTAGAATATCAAAA 79365 29 100.0 38 ............................. TTTTAAGCAGGTGATTAAATGATTAAAAAAGTAGAAAA 79298 29 100.0 38 ............................. AATAACTTGTCAATGTAGTTATATGCAACAACTTCTAT 79231 29 100.0 37 ............................. GAATTATATATTATGAAAAAATATGGAGTCACAGAGG 79165 29 100.0 36 ............................. TTGCAGGTTTTCCTTATAGTTTGCCATATGTTCCTG 79100 29 100.0 35 ............................. TACTTTAGCACTAGTAAAGGTAGAATTATTAAAGT 79036 29 100.0 37 ............................. TCGAATGTGAATGGCACTTCTATTTCTCCAACTTTTG 78970 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 78904 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 96.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAAAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGTATATGATAAACTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGGGTAAA # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTATTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGATCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATCTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 [9-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%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 2 308931-307973 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000002.1 Clostridioides difficile strain LC3P-124-2 NODE_2_length_309774_cov_21.0375, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 308930 29 100.0 37 ............................. TCTCCATCTCCAATTAACATAAATAATTCATCCGCTG 308864 29 100.0 38 ............................. CCGCTTGGCAAATCATAAGAAGGATTATTTTCTCCAAC 308797 29 100.0 35 ............................. AAAATAAAAGAGTTTGAATTACCCATTTTTTCATG 308733 29 100.0 39 ............................. TACGACATTGAATAAAATGGGTACAGAGACAATTTATAA 308665 29 100.0 37 ............................. TTTATAAATCTTTTAATGACTGTCTCTGATGGTACAG 308599 29 100.0 39 ............................. AAAGGAATAGATGATATGATTGCTAATGCTGAACAACAA 308531 29 100.0 38 ............................. GGGTCTGACTTTAATATATATATATATATATATAAATT 308464 29 100.0 37 ............................. TTATAAACTCCCACGACAAAATTAACTATAACCTCGT 308398 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 308332 29 100.0 37 ............................. GCAGAAGATTTAGCGACTGTTGTTGCTGAATGGGATG 308266 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 308200 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 308133 29 100.0 37 ............................. TGCTGTGCCACAATTTGATGCTTCTATAGCTAAATTC 308067 29 100.0 37 ............................. CTTTTAAGTGCATCAAAGGAGTTACAAGCTATATTTA 308001 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 100.0 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTATGAAATATCTGTAAATGAGTAGATATTTCATAAGTTAATATTTATTGTTTGTATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAAATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCCTAACAGTTGAAATATAAGGCATTGAGGGTATGTGATAAATGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAACATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGATTTAC # 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 70659-70036 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000001.1 Clostridioides difficile strain LC3P-124-2 NODE_1_length_425735_cov_22.7969, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 70658 29 100.0 39 ............................. ATTCCGGAAAGTACTTTTGCTATTTGATTCATTCTACCC 70590 29 100.0 37 ............................. TTCACTAATTTTAGTTACAACTATTACAAGTCCAGCC 70524 29 100.0 36 ............................. TATGTGTAATGTATTTTAATGTTTTCTAGCAACAAT 70459 29 96.6 37 ................A............ TTTATAAATTCTATGAATAATTTTAAAGAGAGGTTTC 70393 29 100.0 36 ............................. TGTACATTTGACATAGAAGCTTCAAAATCCATCCCA 70328 29 100.0 37 ............................. GTAACAGCACGAATGATGGCACAGACCTATCTGCAAT 70262 29 100.0 39 ............................. AGAAGTACACTTACAAGTAAGATAAAAGACCCAGGTACA 70194 29 100.0 36 ............................. TCTGTAGCTATATGTGGAAGTAATTTTAGTAGAGAG 70129 29 100.0 36 ............................. TATTGAAGGGGTGAGAGTTGTGACTAGGCACTACAA 70064 29 89.7 0 .....G..........A......G..... | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.6 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : GGGTATGGAATAAATCTGCTAATAATGATATGTTAAATAATGATACTATTAGTGTTGTGCCTGAATGTCTTTTAGAAGAGTACAAGTTGTATATTGATAAAAAAATGTATTTAGAAGCGAGTTCATTATTTGTAAATGTATCTGTAAAAAGATACAATTATAATAAAAAGATGTTTTATGAATGTGGAGATATAGTTGTTACAAGTTATAGTTATAATGATAAACTAGGTCTAATATTTGATTGTTAAGAGAATTATAGTATAACTAATTAAAATATTTTATTGAGAATTTGTTATAATTTATATCGACTACAAATTTTATATGTTACAATAGAATAATTTTGCAGTGAGCGAAAAATATGTGTAAATGGCTGTGAGTTAGTGATGGCAAGGTTTATAACTGAATTTTTGTTTTTAGCTAAAAACACTACTGGTGCCTCACTGCAAATTAACTATTTTAATAACCCTACAAGTGTTGTAATTACTATAGTTTTATTTGGG # Right flank : TTACTTATTCATTAAGAAACTTAACTGAGAGTTTGATTTATATTATTGAATTAGCAAGAGTTTTAGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAATAATAAAAAATATCCAAAAAAATTAGTATAACATCATAACTAAATAGCTATATACCTACACTTACGAAAACCAACAAAACAATCAAATAACCACTTGTAGACTCCCCTCGTCTCCACCAATTTTGAAAATGAAAATAATAGAATAAAAGGAATTACTTATGTTTGGACTAAGTAATTCCTTTTATTTTGCTTAAAAGCACACAATTAGCACACAACTAGAAGGTTATATAAATAAAAAGGCTGTCGCACTAGAAAATAGTGCTACGCTCTTTTTTGTATAAAAAAATAAATCCCAAGTTCAAAAGAACCTGGGATTCTTGTATAATAACTGTATGCTAAAACAAAATACTACACAAATTGATTATACTACTTATGGTGATAATTATCA # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTAAATTACACTAAGTTAGTTATAAAT # 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: NA # Secondary Structural analysis prediction: NA [-0.30,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 112855-113809 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000014.1 Clostridioides difficile strain LC3P-124-2 NODE_14_length_120226_cov_19.5869, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 112855 29 100.0 37 ............................. TTAATTTATCTATAATTTAAAACGGTGAATTACATAT 112921 29 100.0 37 ............................. TAAAGAGGGGTACTTCGTACTTTTACCACTCAAACTA 112987 29 100.0 38 ............................. AGGTCAAGCATAGATTTTGCAACTGGAAGATAAGAAGA 113054 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 113120 29 100.0 37 ............................. TTGTAAAATGTAAATAGCATATTAATTTTTCTTTCAC 113186 29 100.0 37 ............................. TGGAGCATTATGTTTTTAGGTTACGGAGCAACATTTA 113252 29 100.0 37 ............................. GGTGATAGTGGAAGTTTTACTTATACTTGGCGTGCTG 113318 29 100.0 38 ............................. TTCAGAATACTTAGCTCCTGCGCCTATATCGTCTGAAT 113385 29 100.0 36 ............................. AAAGTTTTGCGCATTGTATGTGTGCCTAGATTATCT 113450 29 100.0 37 ............................. ATGTCCCCACATCAATTTTCCTCCGCATGAAAAAATC 113516 29 100.0 37 ............................. TTTAGAAACAACAGAATAAACATAATATATAAGCATA 113582 29 100.0 39 ............................. TTTTACTTTTCCTTTCTATGTGTCCAATTCGGACACATT 113650 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 113716 29 82.8 36 .C.............CA..A...A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 113781 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 98.4 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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], // Array 1 26297-25671 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPP01000005.1 Clostridioides difficile strain LC3P-124-2 NODE_5_length_233777_cov_19.572, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 26296 29 100.0 36 ............................. TAGGATTGGTGTGTTACGACCACACAACGCTGGACT 26231 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 26163 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 26097 29 100.0 38 ............................. CTGCTTTGGCTTTTGGTCGTATAATGCTCCTTATAATA 26030 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 25964 29 100.0 38 ............................. AATAAAAAAGGTATAGTTTTCTTCTTAGTTACTGCCAT 25897 29 100.0 37 ............................. TGTTATAATATTAAAACACAACTAAAATATACAGAAA 25831 29 100.0 36 ............................. TCTAGTTTTTTCTCTTTAGAAAAAATAAAAACAACT 25766 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 25699 29 89.7 0 ............T......T...A..... | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.6 37 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : GTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGAT # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [4-0] 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], //