Array 1 23977-23687 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000010.1 Clostridioides difficile strain LC3P-124-4 NODE_10_length_150100_cov_24.9024, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23976 29 100.0 37 ............................. CTTTGTAATGGTAGTGTATTTAAGATTGAAACATCAA 23910 29 100.0 36 ............................. CAACATTAGTAGTTGTCTTTATACACATAGCATCAC 23845 29 100.0 38 ............................. ACAGCTCCCAAGACATACAACGAATCTGTAACATCAGT 23778 29 89.7 34 ................G...T.......A GACTTATTTACAGCTTTATTTGCTAAATCAGAAG 23715 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 26198-25841 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000010.1 Clostridioides difficile strain LC3P-124-4 NODE_10_length_150100_cov_24.9024, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 26197 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 26132 29 100.0 37 ............................. TTCAGTGAGAATAAGCTTTATTGTCGATGTAACACTC 26066 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 26000 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 25935 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 25869 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 3 118875-118581 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000010.1 Clostridioides difficile strain LC3P-124-4 NODE_10_length_150100_cov_24.9024, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 118874 29 100.0 36 ............................. CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 118809 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 118743 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 118676 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 118609 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 112855-113809 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000001.1 Clostridioides difficile strain LC3P-124-4 NODE_1_length_762862_cov_23.5726, 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 2 463427-462801 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000001.1 Clostridioides difficile strain LC3P-124-4 NODE_1_length_762862_cov_23.5726, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 463426 29 100.0 36 ............................. TAGGATTGGTGTGTTACGACCACACAACGCTGGACT 463361 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 463293 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 463227 29 100.0 38 ............................. CTGCTTTGGCTTTTGGTCGTATAATGCTCCTTATAATA 463160 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 463094 29 100.0 38 ............................. AATAAAAAAGGTATAGTTTTCTTCTTAGTTACTGCCAT 463027 29 100.0 37 ............................. TGTTATAATATTAAAACACAACTAAAATATACAGAAA 462961 29 100.0 36 ............................. TCTAGTTTTTTCTCTTTAGAAAAAATAAAAACAACT 462896 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 462829 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], // Array 1 116295-114548 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000011.1 Clostridioides difficile strain LC3P-124-4 NODE_11_length_142412_cov_28.8408, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 116294 29 100.0 39 ............................. AAGCAACTATAGTAGAAGCAAAAGCGACAACAACTAAAG 116226 29 100.0 36 ............................. TTGGTTAACTTAAGTGCTATGAAAGGAATTAATGAA 116161 29 100.0 36 ............................. TTAAAGGTGCAAGTCTTAATACTTGTTACATGAGTT 116096 29 100.0 37 ............................. AACAAAGAACCATTTGAATCACGAAAACTAAAAAACA 116030 29 100.0 38 ............................. TTATTAACCTTATCAGAAACCTGACCATCCCAATTATA 115963 29 100.0 36 ............................. TCCATTTGTCTAATGCTTCTAACTCTTTTTTTATAC 115898 29 100.0 38 ............................. TCCAAAATGGGCTTGGAGTTAAGAGTTGTATAAGAAAC 115831 29 100.0 38 ............................. TAATTACACACTCCCTTTTAACGAACATATTTTAGATT 115764 29 100.0 41 ............................. AGACTCGACATAGAATCGGTTACTAAATCCGAGGGTTTCAG 115694 29 100.0 37 ............................. ACTAAACCTTTTTGTTTACTTTTATTTCTCATTTTAC 115628 29 100.0 37 ............................. CCGGATTTTTCTGCTTCGACTGTTGTTATTGAGACTT 115562 29 100.0 38 ............................. AGTAATTCCATGCAATCTTTTATATTGCTTTTTAACCT 115495 29 100.0 36 ............................. AGATATACAAGGTGAAAGTGTTGAAATTTCAATCTT 115430 29 100.0 36 ............................. ATTCTTAGATGTTATAATTTGTGTTGCATTTAAATC 115365 29 100.0 37 ............................. ACAATATTATTGTTCATTTCATTTAATAATTCTAGTA 115299 29 100.0 37 ............................. TTGTTTATACCTTTAATCTTTAAAATTAAATATAAAA 115233 29 100.0 37 ............................. CATTGTATACTAAGCTTGATATAGTGCAAAATGAAAC 115167 29 100.0 36 ............................. ACTAATTGGGTTAAACAAATGGATATAACTAAATTA 115102 29 100.0 37 ............................. CCAACCCTTCGCACGAATCCGTGCGACGAAATATAAA 115036 29 100.0 37 ............................. TGTAAAAATATTGCTTAGCATATTGATATCACTAACT 114970 29 100.0 37 ............................. ACAAGAGGTTTTTCAGCAATATATGTACTTCTATAAT 114904 29 100.0 38 ............................. TCATCAATATTAATTTTGGGAATATCAACATTTTTTGC 114837 29 100.0 37 ............................. GCGATAAGAGATTCGAGTCTTTTTACTGGGCTTAATC 114771 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 114705 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 114640 29 75.9 35 A...........TA...CA....A....A TTGTAGAATAAACAATAGCATATACTAAAACATCC 114576 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 79662-78909 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000003.1 Clostridioides difficile strain LC3P-124-4 NODE_3_length_309807_cov_25.9626, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 79661 29 93.1 37 ........................G...G AGGTTTTTCAGAAGTATATGTACGTCTATATTGTAAA 79595 29 100.0 36 ............................. AAGGAAGGTGGAAGTCAATATGCATGGGTCAAATGG 79530 29 100.0 36 ............................. ACGAAATTAGAGTTTGAAATATATGACTACATAATA 79465 29 100.0 38 ............................. TTGTGTCACATCATTGTCACTTCTTTAGAATATCAAAA 79398 29 100.0 38 ............................. TTTTAAGCAGGTGATTAAATGATTAAAAAAGTAGAAAA 79331 29 100.0 38 ............................. AATAACTTGTCAATGTAGTTATATGCAACAACTTCTAT 79264 29 100.0 37 ............................. GAATTATATATTATGAAAAAATATGGAGTCACAGAGG 79198 29 100.0 36 ............................. TTGCAGGTTTTCCTTATAGTTTGCCATATGTTCCTG 79133 29 100.0 35 ............................. TACTTTAGCACTAGTAAAGGTAGAATTATTAAAGT 79069 29 100.0 37 ............................. TCGAATGTGAATGGCACTTCTATTTCTCCAACTTTTG 79003 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 78937 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 308964-308006 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000003.1 Clostridioides difficile strain LC3P-124-4 NODE_3_length_309807_cov_25.9626, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 308963 29 100.0 37 ............................. TCTCCATCTCCAATTAACATAAATAATTCATCCGCTG 308897 29 100.0 38 ............................. CCGCTTGGCAAATCATAAGAAGGATTATTTTCTCCAAC 308830 29 100.0 35 ............................. AAAATAAAAGAGTTTGAATTACCCATTTTTTCATG 308766 29 100.0 39 ............................. TACGACATTGAATAAAATGGGTACAGAGACAATTTATAA 308698 29 100.0 37 ............................. TTTATAAATCTTTTAATGACTGTCTCTGATGGTACAG 308632 29 100.0 39 ............................. AAAGGAATAGATGATATGATTGCTAATGCTGAACAACAA 308564 29 100.0 38 ............................. GGGTCTGACTTTAATATATATATATATATATATAAATT 308497 29 100.0 37 ............................. TTATAAACTCCCACGACAAAATTAACTATAACCTCGT 308431 29 100.0 37 ............................. AGTTTTAAAGAGGGCAGACCTAAAAAATATACTAAAA 308365 29 100.0 37 ............................. GCAGAAGATTTAGCGACTGTTGTTGCTGAATGGGATG 308299 29 100.0 37 ............................. ATTAAATTGCTCAGTCTAGTACTTAAAGAATTATAAG 308233 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 308166 29 100.0 37 ............................. TGCTGTGCCACAATTTGATGCTTCTATAGCTAAATTC 308100 29 100.0 37 ............................. CTTTTAAGTGCATCAAAGGAGTTACAAGCTATATTTA 308034 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 70873-70250 **** Predicted by CRISPRDetect 2.4 *** >NZ_SEPR01000002.1 Clostridioides difficile strain LC3P-124-4 NODE_2_length_426132_cov_28.3635, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 70872 29 100.0 39 ............................. ATTCCGGAAAGTACTTTTGCTATTTGATTCATTCTACCC 70804 29 100.0 37 ............................. TTCACTAATTTTAGTTACAACTATTACAAGTCCAGCC 70738 29 100.0 36 ............................. TATGTGTAATGTATTTTAATGTTTTCTAGCAACAAT 70673 29 96.6 37 ................A............ TTTATAAATTCTATGAATAATTTTAAAGAGAGGTTTC 70607 29 100.0 36 ............................. TGTACATTTGACATAGAAGCTTCAAAATCCATCCCA 70542 29 100.0 37 ............................. GTAACAGCACGAATGATGGCACAGACCTATCTGCAAT 70476 29 100.0 39 ............................. AGAAGTACACTTACAAGTAAGATAAAAGACCCAGGTACA 70408 29 100.0 36 ............................. TCTGTAGCTATATGTGGAAGTAATTTTAGTAGAGAG 70343 29 100.0 36 ............................. TATTGAAGGGGTGAGAGTTGTGACTAGGCACTACAA 70278 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 //