Array 1 607874-606257 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000001.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 607873 29 100.0 37 ............................. TTTCATCAAATTATCAAATTAAACTATATAAGTTAAA 607807 29 100.0 37 ............................. AGAGAATGCTTAATTAACTATAGAAGTGTATTGGCAG 607741 29 100.0 38 ............................. TCCTTTTCAAATTTTACAACATCAGAAGTTAAAATATC 607674 29 100.0 37 ............................. CTAACTCTTCATTTTATTAAATATAAAAATTAAACAA 607608 29 100.0 35 ............................. AATTTATCCTCTAAATTTAAAAAAGGACTATTAGG 607544 29 100.0 38 ............................. AAAGACAACGACTCATTCTTGGTATTTGACATAGAAAA 607477 29 100.0 37 ............................. AGAAATATCAGAATTTTGTGGGCTTGGTTGGGAGATA 607411 29 100.0 38 ............................. AAAAACAAAAAATCCAACTTTAGATTATTATTTTGATT 607344 29 100.0 36 ............................. ATACTCATTATTGTAAAACATATAATCACCTCCTAT 607279 29 100.0 39 ............................. GCCAAACAACTTACTTAAACGTTCTTGTTCTGCTTCTAT 607211 29 100.0 37 ............................. TATAAAATTCTTCTTCTGTAAAGCCTTCTTTGAGTCT 607145 29 100.0 38 ............................. TAAACCACATACACTTTTTTAAATGCAGCACTACCAAA 607078 29 100.0 37 ............................. CTCTTTTTGAACACAGATTGCTTTCTCTTGCTAAAAT 607012 29 100.0 37 ............................. CTGGGCGTTTCTGTTTTTTCAAGAGCAGTTGACTTAA 606946 29 100.0 37 ............................. CGACAAAATTAACTATAACCTCGTAATTATCTAAGTG 606880 29 100.0 38 ............................. ATAAGTTACAGCAGTAAAAAGACTGACAGGAACAAATC 606813 29 100.0 37 ............................. AATATTAATTATATAATAACAGAATAAAATAAAAAAG 606747 29 100.0 37 ............................. CTAGAGATAAGAGGTTTCTGCTTTTTATTTTCTTCTG 606681 29 100.0 37 ............................. AACATTCTGCTTACATCTGATAGAAAAAACAGTTCTT 606615 29 100.0 38 ............................. CATTGAATCTGCTTATTAATACTATATTTACATACTAA 606548 29 100.0 37 ............................. TTGATAAATATACACCAGTAGAAGATTAGATTAATAG 606482 29 100.0 37 ............................. CGCTTATAATTTTTAATTGCATATTCAATAAAAAATT 606416 29 100.0 37 ............................. TATTCTTTTGCCAACTTTATTCCATTATTCAAATCTT 606350 29 96.6 36 ............................C TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 606285 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 25 29 99.3 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAATTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAATTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [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 2 855524-854834 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000001.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 855523 29 100.0 37 ............................. TTGTAACTTCTTTATTTTTTTTATTCAAAAATGCTGA 855457 29 100.0 38 ............................. TATAAATTAGCCATTAAAGAACTATTTTTAACAACATC 855390 29 100.0 37 ............................. AATATTCTACTGTTTTAGTTTGTTTTCTTAGAAGAAA 855324 29 100.0 37 ............................. TATTAAAATAATAACTTTTCTATTTTTATATGATTAA 855258 29 100.0 38 ............................. TTAATTAACTTTTCATTATTTTTATTTATGTTGCCTTC 855191 29 100.0 37 ............................. TATAAATTTCATTATTTTTAATTCAGCTTGAGGTATC 855125 29 100.0 37 ............................. TCTTGCTTTTCTATAACTTCAACTTTCCCGTTAGAAG 855059 29 100.0 37 ............................. GAAAAGCTTTGAGAGAAATATGCAAAGTAGAATCAGC 854993 29 100.0 36 ............................. TCTATCTTTGAATAATAAGACTTAGATATGCCTATT 854928 29 100.0 37 ............................. TATAAGCTATCTCATTGAGTGAATCAGCTATAATCTG 854862 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCTATTTTATCTCTAAATATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # 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:83.33%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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%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 59153-56609 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000012.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000012, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 59152 29 100.0 37 ............................. TTTTTCAGCATCTAACATAATTAAAATTCTTTCTTTT 59086 29 100.0 36 ............................. ATAACATACAAATTTTGTGTTCTATATGGCTTATAG 59021 29 100.0 36 ............................. CTGGAATATCAAGATATTGCAAGTATAAGAGGTTGT 58956 29 100.0 38 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAA 58889 29 100.0 38 ............................. ATGTATTAACCTGTATGACACATTTTTCCTCATCTTGA 58822 29 100.0 37 ............................. TTATTTAACAACATAATTTTACGTCCTGCATTACTAT 58756 29 100.0 38 ............................. AAAAGTCAAACAGAAAAAGAAAAGATAAATGAGATAGA 58689 29 100.0 38 ............................. AGACTAAATAAATCTGTTTTATAAAAAGCGTTTAATTG 58622 29 100.0 37 ............................. TTTGCTTTAGCTTCTGCGTTTCCTGTCGCTGACTCGA 58556 29 100.0 36 ............................. CAACTTTTAGTCTTTCATCAAGCGCTTTTATTTGTA 58491 29 100.0 39 ............................. TTTAGCATATCAGCAAATCTATACTTATTTACTTTACTT 58423 29 100.0 37 ............................. TGAGTATTGATATAATCAACAATTTCCATATCACCAA 58357 29 96.6 36 ............A................ AGTTTTGAAGAGCAAACAATAGATTTTTACGACTCA 58292 29 100.0 37 ............................. TTTCCATTTCCAACATACACTGCATGTTCTTTAACAA 58226 29 100.0 37 ............................. TCTATTATCTAAATCTATATTGTCCCATCTAAATTGA 58160 29 100.0 38 ............................. AAAAAAATAACTGAAACTTATCATGCAAAAGGTGATAA 58093 29 100.0 37 ............................. GCATATTCTAATAATATGTATCTTTGGCAAGAAAATC 58027 29 100.0 36 ............................. ACTTCAAAGGCTGTGTTTACTATCTCACTATCTCTA 57962 29 100.0 37 ............................. GTATTATTCCAAGTATGAGAAACAGAATCTGACTCAG 57896 29 100.0 37 ............................. GTTTATAAAAGCTGAGGATAAACTTTCTTGTATCTTT 57830 29 100.0 38 ............................. TCTCATGACAATAGAATAAATGTAATAAACAAGCATAC 57763 29 100.0 37 ............................. TATATTTCCCTTTTTGAAAATTCTGAAAGAGGCATAA 57697 29 100.0 37 ............................. TAGGATATAGAACGAAAGGTACGGACGGCAAATATAG 57631 29 100.0 37 ............................. CAACAAGGTTCTGGTGATTTGGTTATTCCAGGTGATT 57565 29 100.0 37 ............................. ACATAACCAAAACTCTCAAAATCAATACCTTTAATTT 57499 29 100.0 37 ............................. TTATCCGCAGTTGCGGAAATAGGAAAAACAACAGAAA 57433 29 100.0 38 ............................. TCAGATTAAACGAGAGTTTGGAGTAGATAGTTATAAGG 57366 29 100.0 37 ............................. TAATTGCATCAAGACCAGGATGGGAGATATGGCGACG 57300 29 100.0 36 ............................. ACATATGTCGCTTCATCAGCAGGAACAGATAACAGG 57235 29 100.0 38 ............................. AGCTATAAAACTATATCAGCAAAATGTGGATGTAGTGA 57168 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 57103 29 100.0 38 ............................. TGGTTAAATCTCCAACAGAACATTTATCTAAATTACAA 57036 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 56968 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 56902 29 96.6 37 ...............T............. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 56836 29 93.1 38 ...............T.C........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 56769 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 56703 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 56637 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 39 29 99.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAACTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATACATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAAATTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 : 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%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 1 189611-190765 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000002.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 189611 29 100.0 37 ............................. GTAAAACTGCACTAGGATTTAATCCTAGCATCCATAT 189677 29 100.0 37 ............................. TCAGCATATTCTTCTAGTTCTCCAGCGTCCAGTTTGG 189743 29 100.0 37 ............................. AAAGAGGTGATGTCTAGTTTTAGCTTTGAAACGTATG 189809 29 100.0 37 ............................. TATAATTTATTAGCTTGTTTCAATAATTCTAATTGAT 189875 29 100.0 36 ............................. TCACTAACAGGAACATCAAAAGGAGGTTTAAAATCT 189940 29 100.0 37 ............................. GAAGTTAGAAGAGGAACACACTTACTTTTAACTTTCA 190006 29 100.0 37 ............................. GAATAAAAATAAATCAAAGTTACTACCCCCCAATAAA 190072 29 100.0 37 ............................. ACACTTGAAAATTTATTTTGCAATTCCTTTAAAAAAT 190138 29 100.0 37 ............................. CTTATTTCTAATATATCAAGATAGAAAGAAACTATCG 190204 29 100.0 37 ............................. AAATTCATCAATATAACTACAGAAGGTTTTGTAAATG 190270 29 100.0 40 ............................. ACTTTAGTTGCAGCTGCAAATGCACCACCAACTCCAGCAG 190339 29 96.6 36 ............................A ATCGAATTGAAATATTTATTAGCAGGAGCAAGTTTT 190404 29 100.0 37 ............................. ATGGATGCAGTTTTAGGTGATGCTTATATGGTTCAAG 190470 29 100.0 37 ............................. GATTCTGAGTTTAACGTTACTATAGAATATACTACTT 190536 29 96.6 37 ..C.......................... AATACAAGTGTATATTTGAAATCTAAATATAACTATG 190602 29 100.0 37 ............................. GTAAAAATGGTTTCTTTTAAGGAATCTTTTATGAAAA 190668 29 100.0 40 ............................. CCATATTGGGATATAGTAAAATTTTCAGGAAATGTATATG 190737 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 18 29 99.6 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCGGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATCGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTCAAACTATTTTCAGATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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 [0-2] 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 430655-431805 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000002.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 430655 29 100.0 38 ............................. AATATTCTACTGTTTTAGTTTGTTTTCTTAGAAGAAAA 430722 29 100.0 36 ............................. TTGCGCATGAGATAAAGACATCTAAAGATAAGATAC 430787 29 100.0 36 ............................. AACATAATTATAACATAGGAGTTCATTAAATGAAAA 430852 29 100.0 38 ............................. TGTGTTGCTGTCATACGAGGTAACATTTGTCTGTTTTC 430919 29 100.0 37 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGA 430985 29 100.0 38 ............................. TGTGTTGCTGTCATACGAGGTAACATTTGTCTGTTTTC 431052 29 100.0 37 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGA 431118 29 100.0 36 ............................. ACAACAGGAACATCAACTGGTGGGTCTATTGGAGGG 431183 29 100.0 37 ............................. AGCAAGATACTGCAAATATTTATATACACCAAACATT 431249 29 100.0 36 ............................. GAACATTTAAAACATCAAATACACGTTTAAAATCCC 431314 29 100.0 37 ............................. CTAATAAGACTAATAACATCTGAATTATTTATATTTA 431380 29 100.0 38 ............................. TTGAAATTACTTACATATAGGTCTATTTAATTAATCAT 431447 29 100.0 37 ............................. TTGAAACTTACTACACCAGTTTTAGTAGTTCCAGCTA 431513 29 100.0 37 ............................. ACAGCAGTAGCAACACCCTCTTCAGCAGCAAAACAAG 431579 29 100.0 36 ............................. AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC 431644 29 100.0 38 ............................. TAAACTGTTGGTTCTACTGGTGTTTCTTCTTTATTTAA 431711 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 431777 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAATATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 66795-66434 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000013.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000013, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 66794 29 100.0 37 ............................. TTATTTTGGGATATAACATATCCATAATTTTACAAAC 66728 29 100.0 37 ............................. CCACCTGCATTGAAATGTATTGATATGAACCAATCTA 66662 29 100.0 38 ............................. ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 66595 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 66529 29 100.0 38 ............................. CCGTCTTTTGTTGCTTTACATAAATTTATATTACTTAT 66462 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 97.7 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAGAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATTTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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 [83.3-71.7]%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], // Array 1 20151-20308 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000015.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 20151 29 100.0 36 ............................. GCCATACCTGCGTAATATATCGCATCAGCTACTTCT 20216 29 86.2 36 .T.............T.......G....G GCCTTAAAGGCGTCATCTAAGTTTTTAGTAGTCTTT 20281 28 86.2 0 AT..................-...C.... | ========== ====== ====== ====== ============================= ==================================== ================== 3 29 90.8 37 GCTTTATATTAACTAAGTGGTATTTAAAA # Left flank : AAGAAAAAGTAGATAAAAAATATCAAGAGAAGAATAAAGAGAAAGCAGAAACGAAAAAGCAAACATTAACTAGTGAAGAATTAAAGAAAAAAGTTGAGTCAATAATTTCATCACAGTATAAAGGAAACTATTATACAAATGATATACTGGATGCAGATGGTAGTTGTGTACTTAGTTTACAGGTTCAAAATGCAAGTTTTGACAACGAAAGCAGTTGTAAGGTATTTACTAAAGACTTAATTAACAAGTTGAAAGAATTTAGAATAGACTCAGCAGAGATATATTTTGTAGGTTCAAGCGGTCAAACAACATATCAAATTAACATAGATGATTTCTTGAAAGTTCAAGATAATATTGATAGCATAGACAATATGGAGTTTTTTTCTTTTAAAGATTTTAAAAATTAGAAACAAAATAGAGACATTTGCTTAAACAACATGTGTCTCTATTCTACCAAATTATGTTATAATAGTACTTAAGAAATATAATTTTATAGCATG # Right flank : ACTAAATAAACAAAGGAAGCACTTACTTAAATGGTAGGTGCTTTTGTTTTGCTCAAATTTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTAATTGACTTTTGTTGCTACATAAACTATAATATATTTGTAGCAACAAAAGTGAGGTGAAATAGATGCCACAAAAAAAGATGGGTCGTCCAACAGAAAGTGTAAAAGATACTATGATTAGAGTAAGAGCTGATAAAGATACTATTGATAAGTTAGATGAATGTGTAAATTTATTAGATAGTAATCGTTCTGAAATAATAAGAAAAGGTATAGACAAAATATATGATGACCTAAAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTCCCACAAAGAAGTTAGTACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATAACTTACAAATATTTAAAAATGAAG # Questionable array : NO Score: 3.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 5:-1.5, 6:0.25, 7:0.02, 8:0.4, 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 : GCTTTATATTAACTAAGTGGTATTTAAAA # 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:84.62%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-68.3]%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 2 22042-22336 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000015.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 22042 29 100.0 38 ............................. TTATACATGCTACTACATGCAACTCTAACGTTTGTTGC 22109 29 100.0 38 ............................. TAAAGTTTCTTGTTACTGGACCTAATTTTTCTCCTATA 22176 29 100.0 37 ............................. ATATATAAATTATTAAAAGTGGGAGATGTTAATTAGT 22242 29 100.0 37 ............................. TATTTTACAGATTAACAATTACAGTTACTTCTTGAAT 22308 29 82.8 0 ......T.........G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 96.6 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAGATTGCAGGTGAGAAGAAGAATTATCATGTAGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTAGTTTAGTTTTGGGGGGATTAATACAATGCATGAGAATTTACTTGATATAGATAGAATAGAACTTATCAAAGAACTTGAAAGTATCTTTGAAAAAATGAAAAATGAAAATCCAGATGAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAGAAGAGAAAAATAAGTAAATAATATAAATAAAGCACTTGGATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAGTGGTATAATAGAGATAGAAGTTTTGCAGTGAACGACATTTGTGATAAAATATGGCTTAACACTTGAAATATAAGGTGTTGAGGGTGTATGATAAGTGTTATTATTTGCACTACTACCCGCTCACTGTAAATTTAAGAGAGTTATATATATGTAAGTCTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTAAAAATAATTAAAAAACACTTACTTGAATAGTAGGTGTTTTTTTAATGAAAGGATGTGATTATGATGTAAAAAGTAATAAATAGGTAAAATATGTAATAATTATATGTTATAATATTTTTAGCAAGAAGATGTAATCTACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGTGTATGTATGGATAATTTTTTGATTGGCGTATTAGCTAGCTTAACAGCTACTCTAATAGCTTACGTAATTGGTAAATTAATCAAAAAAGCAAAAAGCCACTCTCGTGCAAAGAGTGACCTAATAGTTGAATTTAAATTTATGTTTAAATCCAAGAAATGATTGAGTTTTAATGAACTCCACTCTACGACCAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTAGAAAAAATATTACCTATAATATTTTTTATAGTCAATAAAAAGATGAAATTTTTTATACAAAATAATA # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 59512-60327 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000003.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 59512 29 100.0 37 ............................. TTTACTCCTTGTATAATGTAATCACCTTTGTTAGCTC 59578 29 100.0 36 ............................. CAGTTTAGACAAGCTTTCAGACGACTTCGGCTTGAC 59643 29 100.0 37 ............................. CTTTCCAGTTCGACACTTAATCATATCTAATATTAAA 59709 29 100.0 37 ............................. ATTTTAAAACCTAGATTGTATAGCTCTTTATTCAATT 59775 29 100.0 36 ............................. ATCTTCTTGTTTGTTCTCTTGATTTTTCCGCCAAGC 59840 29 100.0 36 ............................. TCTCTTAGTCTTGTAAACATGTCGATAGCTGCTTGT 59905 29 100.0 37 ............................. CTAATTTTAACTGGCTTTATGCAACAATATAGGGCTA 59971 29 100.0 36 ............................. AAATTGTAAGAGAATCTTTTGATACTTATATAAAGT 60036 29 100.0 37 ............................. AATCCAAATCCAGATTGGGGAAACAATGATAATGATG 60102 29 100.0 37 ............................. GATAAAATTGAATTTGGCTTTAATGATATATCTAATT 60168 29 100.0 37 ............................. CCAGATATTGAGATAAAACCAGAACCACCTAATCCAA 60234 29 100.0 36 ............................. TCTTCATATTTATTCATGTATTCAATGATAGCATCT 60299 29 89.7 0 .......................GC.G.. | ========== ====== ====== ====== ============================= ===================================== ================== 13 29 99.2 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : TTAAATTGTACTATATTAGTTATAAAATACCATGCTTATATTATGTGTTTGAATTAAACTAAATTAGTTGAGATATTAAGAATTAAAATGTTAATATAAGCAAGTTATATTAAAATATATAAAAATCATATGATAATATTTATATATTTTAGATAATGAAAAAACTAATTAAGGACATAGACATGTTTTTAATAGTTTGTATTTTGAGTATAAAAGATATTGATTGTTTAATTAATATCTTTTTATATTGTTATCTTATATCAAAAAGTATGTAATAATTCTATTTAGATATGTTTTTAAATTTATTATGTCTTAAACATAATATTTAGTAGTTTTGGTTTTGCAGTGAGCGAAAAAATTGCATAAATGGCTGTAAATTAGTGATGGCAAAGATTACAACTGTATTTTTGATTATACCAAAAAACACTACTTAGCGCTCACTGCAAATTATTCATTTTAATAATACTATAAGTATTGGAATTACTGTAGTTTTATTTGGG # Right flank : TATACCAGAAAGTATATATAAAATTATGTGTAAACTATATTGTTATGAGTACAAATAATATTTACCTATTCATTAAAAAACTTAACTAAGAATTTGATTTATATTATTGAAGTATCAATAATTTTGGAAAGTAGAAAATTATACCCCAATAATACCCCAATTACAAAAATAAACAATAAAAAATAACCAAAAAAATTGCTTCAACATCATGACCAAATAGCTATATACCTACACTTACAAAAACCAACAAAACAATCAAATAACCACTTATAGACTCCCCTCGTATCCACCATTGAAATCCACGAATACCTATATCCAATTGGATATAGGTATTTTTATACATTTTTAATTTAAATATTATTGATAAATACATTTAAAAAGTGTTAACCTAAAGTGAATAATCTAAATAAAAATACAATACTAGGAGAGGTCATCATTACAATAGCAGCTTGTGATGATGAAAAAGAAATACAAATCGTAATAAAAAATCAAGTTGATAA # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0.00,-0.30] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-81.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 269209-271797 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000003.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 269209 29 100.0 36 ............................. TCAATTGATGGCACTTGTGTTTGTATACCACCTTGT 269274 29 100.0 36 ............................. GTGAAATTAGATTTCATATTGTTTAATCTATTTTTT 269339 29 100.0 37 ............................. AAATACATAGCATTTTTGTAGAAAATTTTATATACTT 269405 29 100.0 37 ............................. TTATTTTCAAACTTTTTTTCATATCCTCTGCTACAAT 269471 29 100.0 37 ............................. TTTCCTAATGAACCATGGTATTCTTCTGTGTCGTAAC 269537 29 100.0 35 ............................. GAAGATGAAAACGACAAATTAGAATGGGAACAAAA 269601 29 100.0 37 ............................. CATGAATAATTTATCTTGCGTTCATCTAGTAATAATC 269667 29 100.0 39 ............................. TCTTTTACACCTCGATTTGTAAATCCTAAATCAGAAATT 269735 29 100.0 37 ............................. TAGATTTAGTCATATACTTAAAAACTTCATAATAAGA 269801 29 100.0 36 ............................. TTTTTCTATTCCACCAAAAAAACCACCAATGCCATT 269866 29 100.0 37 ............................. ATGATTTTAACTATTTCGGTGTCCTCTTTTAAAGACT 269932 29 100.0 36 ............................. TTTATCCTTCTAATTTTAAATTTTAGAATTTTAAAA 269997 29 100.0 36 ............................. ACGCTAACGCAAATAATTCTCCTAGCTGATGTATTA 270062 29 100.0 36 ............................. CGCCTTTTATGTGAATCAAGAATTTTTTGATTAAGT 270127 29 100.0 38 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAGG 270194 29 100.0 36 ............................. ATAATGTATTAGTGAGTAGAGTAAAAACAAATTTCA 270259 29 100.0 37 ............................. TGAATCTGACGAACTCTATATAAAGCAAAAAATAAAG 270325 29 100.0 36 ............................. CGAAGAGTTTTTTAATACTTCTTTTTCTTTTTCCAT 270390 29 100.0 37 ............................. AATTTTCTATGTTGAGTATAAAAATTTATCCAACCTA 270456 29 100.0 37 ............................. TTTTTGTTATAGCCATGTGTAGCGTATGTACCCGAAC 270522 29 100.0 37 ............................. TTTTTTAATAAGCTATGACCTACTGATAAACATATTT 270588 29 100.0 37 ............................. AATTTATTAGCTAAAATTCTTCTGTTATTAAAGCTAG 270654 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTCTGCACTGAACCAC 270720 29 100.0 36 ............................. TTGTAAAATCAGCGTTATTTTTTTATGATGGATATA 270785 29 100.0 37 ............................. TAACCTCTTTTGTTAGTCCATGAACTTTTGCCTTTTC 270851 29 100.0 37 ............................. TGTAAAGAGAAAAAAACAAAACTTTAAAATTTTCATA 270917 29 100.0 37 ............................. AAAGTAAACCCATGCACAACATAATTTTTAAATAAAT 270983 29 100.0 37 ............................. ACATATACATGCAAGGTAGTTTCTTTTTTTAATGTAA 271049 29 100.0 38 ............................. AGATTTAAAAAAACAGGTACTAAACAACCTGCTCTCAC 271116 29 100.0 37 ............................. GGAAAAATATGGGAAAAATTAACTAATATAATGCAAA 271182 29 100.0 37 ............................. TTTAGATACGCAGAAGAAGAAATTATAAGTTTAAATG 271248 29 100.0 37 ............................. GTGGGATTTTAAAGTATGCAAATAAAGGTCTTTCAAT 271314 29 100.0 36 ............................. GGGAGCGCAAGCAGGGCTAAATCAAAATGACGACAT 271379 29 100.0 36 ............................. ACGAAAATTAGAACTACCATATTTACTGTAAACTAT 271444 29 100.0 38 ............................. GACATAAAAAACACCCATAATGGAAATCGCAATTGGAG 271511 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 271574 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 271640 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATTAATGAGTATTTAGAAACTT 271705 29 79.3 35 ............TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 271769 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================= ================== 40 29 98.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACACAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAACTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 : 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 [0-17] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%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 10785-11076 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPR01000009.1 Clostridioides difficile strain 5504-L/ST55 LCH5504_contig000009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 10785 29 100.0 37 ............................. GAAATAGCGAGAATTATTGTGTCTATAGGAGCGGTAG 10851 29 100.0 36 ............................. AATTTAAAAAAGTGTATTTATAATATTTTTAAACAA 10916 29 100.0 36 ............................. TTTATTTTACTTGTAATTCCTCCAAGTATACCACTT 10981 29 96.6 38 ...............A............. CAGATGAACGTAATAAGTTCGCTGAAATGGAAGCTAAA 11048 29 86.2 0 .....................C.AA...T | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 96.6 37 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : GGAGGTACAAAGTCACTAGAAAACTTTCATCAAGAGTCCACAGATATTGAGGATTCTAAATCAAGTGATAATGTACAACAAGATGCCTAGTGAGATATTAAGAATTAAAGATGAATATACTTCTTTTTGTTTTGATGAAGCTTGTATGTTTTTAGTAGATGCTATAAAAAATGATAAAAAGCTTAAATTTGAAAATAATGAAAAGAAAACTATAGATAAAAATGAGAGAAAAACTTTTGTCCAAATAGCATTAGAGAAAAAGAAAAAAGTTAATAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATACATTGGATGTAATCATTGAAATTACTACGATATAAGCATATTTTGTAATATATCAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGTAAGAACTGGAAATGCTTAATTTATTTTGGG # Right flank : TTGAATAAACGCACAAAACATCTACTTAAACATATAGGTGTTTTTAGTGTAAATATTTTTAAATAATTGGATAAATTTCCTAAATCAATAGACTAAATTATTAATTTTAGATAGAATTATATTTGAATAAATAATTTAATAGGGGAGATTATATTATGAAATTAACAAAAAAAGTATTAGTTTTGAGCATAATAGCATGTTTTTCTGTAATGATGTTTATGACGGGATGTACTAGTTCACCAGAACCTAAAATGGAGGAAGCTGGTCAAGAAATACCAAAAGAAGAGGAAGAGATACCAGAAGAAAGCATAGATAAAGATAAATTAAATCCAGAAGAATTTTTGGGTTGTCAAATTAAAGAGTTTAAAGATGGTTGGCATGCATTAGGGCAGATAGAAAAAAATGTAAATGATGGAAAAATGACTAATGATAATTTAAAAACAGTGGCTGACTTATATGAAAAGCAGTTTAGCACTTTGAATGAAGAAATTGAAAAGTAT # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 : GTATTATATTAACTATGTGGTATGTAAAG # 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: 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-76.7]%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], //