Array 1 23691-24838 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000016.1 Clostridioides difficile strain LC4-013-6 NODE_16_length_82422_cov_41.5948, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23691 29 100.0 36 ............................. GAATTATTAGGAACATAAACATCCAATCCATCTTCT 23756 29 100.0 37 ............................. TTTCTAACATCCTGTACAGTCGTTTCTTGCCATGCGG 23822 29 100.0 37 ............................. GATAATTGCTATTTTACTAAAGGTACGGTCGTGATTT 23888 29 100.0 38 ............................. TCGCTAGGTTTTATATCTGCTTTATTAGTATTTTTAAT 23955 29 100.0 38 ............................. TATATTTTAGATGTTAATGTTGCAAATACAAGGTTCAC 24022 29 100.0 37 ............................. AAGCTCCAAAATAGCTATAATTGGGAACAGCTCCTTT 24088 29 100.0 36 ............................. TGATTTACTGTTAGACCACTCCTGCTTATCTCTACA 24153 29 100.0 36 ............................. TCATCCAGCAATTTTTTTATTATAGCTTTCATGGGT 24218 29 100.0 37 ............................. GTTATCTTCGCCAATTGGGTTAGTTGAACAAATTATA 24284 29 100.0 37 ............................. TATTTTTTCAACTCATAATTTGCACACTTAACCTCTA 24350 29 100.0 36 ............................. AAACTAATCACCACCCCGATTACTCAATTTATAAGT 24415 29 100.0 37 ............................. CATGGACTTCTTTGAAGATTTTACAAGGTCAACAATA 24481 29 100.0 37 ............................. CTCAGTATGTATTTATAGTGCTTTTGTCAGTTGTATG 24547 29 100.0 36 ............................. TTAGAAATTTTACTTGAAAATATTATACTAAAGGAT 24612 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 24678 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 24744 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 24810 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 46208-47540 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000019.1 Clostridioides difficile strain LC4-013-6 NODE_19_length_61482_cov_43.1895, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 46208 29 100.0 38 ............................. ATACGTTACAGCAGTAAAAAGACTAACAGGAACAAATC 46275 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 46341 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 46405 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 46470 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 46536 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 46601 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 46666 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 46733 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 46799 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 46864 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 46929 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 46994 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 47060 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 47125 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 47191 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 47257 29 100.0 35 ............................. ATTGGAACATTTAGAAGTATTGGTGCCAATGAAAA 47321 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 47387 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 47453 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC 47511 29 69.0 0 AC..........TA...CAT.T.C..... | T [47517] ========== ====== ====== ====== ============================= ====================================== ================== 21 29 98.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACATATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAAAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAGTAGAAATTAAAAAACTTGATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-85.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 235485-235840 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000001.1 Clostridioides difficile strain LC4-013-6 NODE_1_length_475756_cov_46.4932, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 235485 29 100.0 37 ............................. TCGATAGATTATGGTGGGTTATTTAACCCTATCGCTA 235551 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 235617 29 100.0 35 ............................. GGGTAGGCTTTCCGATTTTCATGTGTTTGATGCTC 235681 29 100.0 37 ............................. ATGAGAGATTTACAACTTAAAGGTTCTAATGAATTAC 235747 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 235812 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTATATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTAAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 252407-251389 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000005.1 Clostridioides difficile strain LC4-013-6 NODE_5_length_255352_cov_42.583, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 252406 29 100.0 36 ............................. TTTGTACTTCCGCTTTCGCTGTTGACCCTGCTCCTT 252341 29 100.0 37 ............................. CGCTTTCAGTAGCTGTCGTTTCGTCTGGAATATTAAA 252275 29 100.0 39 ............................. TAGCTTGATAATAACCACCCTCCATAGGATTATCAGATG 252207 29 100.0 37 ............................. GATGACATGATAGTATTAGCTAATACAGAAGTAAAAC 252141 29 100.0 37 ............................. TTTTTTTCATCATTTAAAACTTCAACTATCTTATAAT 252075 29 100.0 36 ............................. AATATTATTGCTTTTATATTTTTTAAATTTATACTT 252010 29 100.0 37 ............................. TTGCATTCTCCCAACCATTCTAGATATTCTCCATAGC 251944 29 100.0 38 ............................. GCGCAAACATTACCACTTCCACCTTTTCCAAATAAACC 251877 29 100.0 38 ............................. AGCCTTGTCTCAATATGAAAGAGATTTAAGAATGCCAG 251810 29 100.0 36 ............................. TGAGTTAATAGAAAATTTAAATACTAATGAAAAAGT 251745 29 100.0 37 ............................. AATTTTTCGAGAGTCTCAATTTACAGAAGAAATTGGA 251679 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 251614 29 100.0 38 ............................. TCGGTTTATTCGTATTATATTTCTATAATCTTATTTCA 251547 29 100.0 36 ............................. CTTGATGATTGGCGAGAATACTATATTTGTTGGTCA 251482 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 251417 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 16 29 99.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAATTATTACATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 120310-120802 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000007.1 Clostridioides difficile strain LC4-013-6 NODE_7_length_211645_cov_43.3771, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 120310 29 100.0 38 ............................. CTTTCTAGTATTATTTGAGCTAAAGAAATTGAAGCTGG 120377 29 100.0 38 ............................. AAAATTTTAGCTACTTCAATTTTATTCATGCTTTTATC 120444 29 100.0 38 ............................. AGTAATATAAACGTTTTTGCTGATAAAACAACTTATAA 120511 29 100.0 37 ............................. ATTTTTCTACAGTCTTCGTCAATTTTGAAAGCACCTC 120577 29 100.0 37 ............................. GAGGAAATGTTTAATATGATGAAAAATGGGGCGGAGA 120643 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 120708 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 120774 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAATTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGTTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 118022-117664 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000006.1 Clostridioides difficile strain LC4-013-6 NODE_6_length_228850_cov_42.7256, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 118021 29 93.1 37 .AG.......................... GCTGTATCCTTTGCCCCTTTTGCTGCGTCACTCAAGG 117955 29 86.2 37 T............A.T............G TCGTTTATCATTGCTAGCCTCGCATTCGTACTGGTCA 117889 29 93.1 37 A...........................G ATTCGCGATACTATTTGTGCAGTATCTAAGTAGGATG 117823 29 100.0 36 ............................. CATTCACTACAAAATATATATTCTAATGTATCATTC 117758 29 89.7 37 ...............TA...........C AATATATATAGCAAATCTGTTATATTAACTATGAAGC 117692 29 82.8 0 ...............T....AC.TA.... | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 90.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CACAGTTGGCTGTTTGTGAGATTATTAAAAAGATTGATTTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACTAATGGAAGTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAAAATAATAGACCTGCTAAGATTGCAGGTGAGAAGAAGAATTTCCATGTAGTGTACAAAATTGAGTAAATTTGATTGTATTAAATAATTTAGTTTAGTTTAATTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATAGATAGAATAGAACTTATCAAAGAACTTGGAAATATCTTTGAAAAAATGAAAAATGAAAATCCGGATGAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAGTGTAGGAAAAAAGAAGAGAAAAATAAATAAATAGACAAATAAAGCACTTGAATATTTTACTGTTTCAAGTGCTTTATGTAGTAAAAAATGATATAATATAGGTAG # Right flank : TAAAAATAATTAAAAAACACTTACTTAGGTAGGTGTTTTTTTAATTGAAAGTAGGTGATTATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTGCGTAGGGGGTAATATTATGGGATTATTCGGAAGTAAAGATAATTGTTGTATTTGTGGAGAAAAAGGAAAACAAAAAATAGCTGATGGATGGTTGTGTAAAGAGTGTTTTAAGAAATATGCAGTTGCCACCTTTACTCCAGGAAATACTTTATATCGTGGGTTACCAACTAAATTAGAGGTAGAGAAGGCTATTGAATCAAAAGATGATAAAGAAAAAGAGCTTAAAAATTTTAATCCTACAAAAAAAATATTAAAATTTATGGAATTTGATGATAATAATAAGAAATTTATTGTTTTAAATGGGTTTAATAGAGAAAAAGTGAATTTAAGTGTTTATAATTACAGTGATGTTATAGAATATGAACTTCTAGAAAATGGCGAAACTGTGACTAA # Questionable array : NO Score: 3.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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:81.48%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 120645-119607 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000006.1 Clostridioides difficile strain LC4-013-6 NODE_6_length_228850_cov_42.7256, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =========================================================== ================== 120644 29 100.0 37 ............................. TGTGGTGGTATTTTTAAGTCCTAAGCATTTTCGCTTG 120578 29 100.0 38 ............................. GTCGGAGAAGTTGCTAGGTAATTATTGTATCCATTTTC 120511 29 100.0 37 ............................. TTCCTCCCGCTTCCGCTGCACGTAAAACTGGTTCTAG 120445 29 96.6 36 ...........................G. CGTGATTTTATAAAAGATTTATATAGTATGTTTTTA 120380 29 96.6 38 ..........G.................. TTAATAGAACCTAGTAAAACGGCTACACTACCTTTAGA 120313 29 100.0 59 ............................. TATCTTCGCTGTCCCAAATAAACATCATAACCAACAAGTTTTAGCTGCTTCTATAGATA 120225 29 100.0 36 ............................. TAACTAAATGTTCTTGCAGTGTCACTACATGTTTGA 120160 29 100.0 37 ............................. AAAAAATCGTTAAGATTATTTTCTTCTTGACCAAATT 120094 29 100.0 34 ............................. TCATAATAATACTCTTTGACTGCATACCAAACAT 120031 29 100.0 36 ............................. CCAGTCATGAAACCAAAAGAATTTAGACCAGATTCA 119966 29 100.0 38 ............................. TTTTCATCAAGTATATTTATTGTTAATTGGTCTGGAAA 119899 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 119833 29 89.7 37 ......T.........G...T........ TAATGTTCTTTTCTCTATACTGCTCATGTTTACATAG 119767 29 89.7 36 ......T.........G...T........ GTGCAAAACATTTAGAAGCAAAAGAAGTAAAAATAA 119702 29 100.0 38 ............................. TAAATTGTTGAAATTTCTATATCGACGCTTAATAAATC 119635 29 79.3 0 ................G....GAAA..C. | ========== ====== ====== ====== ============================= =========================================================== ================== 16 29 97.0 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : AAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTTTGCTCAAATTTGGTCGGTTGGGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTCGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAGAAATAACAAAATAGAGCATTCTCCCCGACCAAAGATTGAATGCTCTATTTCCAACAAAGAAGTTAGCACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATCAATTTGAGGAGGAATTTATATGAAAACTAATTTAGAATTAATCAAATCAGAAAACTTTGGAG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.07, 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 [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 3 211053-210561 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERG01000006.1 Clostridioides difficile strain LC4-013-6 NODE_6_length_228850_cov_42.7256, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 211052 29 100.0 37 ............................. GAATAAAAATAAATCAAAAAACTCACCTCAAACTTTA 210986 29 100.0 37 ............................. ATACTTTTCACTATGAGTTGCTAATAAATCCTCAAAC 210920 29 100.0 36 ............................. TTGAACTTTCGAACAGCAGTAACAAGAATCTTATCA 210855 29 100.0 36 ............................. TGAAAAACTAGTTAAAAACTGCATCAAAGTATTGAT 210790 29 100.0 38 ............................. ATTAAAAACATTTATTCTTTCATAGTTTGATTTTACTA 210723 29 96.6 38 ..................A.......... ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 210656 29 100.0 38 ............................. CCATCTTTTATTGCTTTACATAAATTTATATTACTTAT 210589 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: 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 [83.3-71.7]%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], //