Array 1 382098-383565 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000002.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 382098 29 100.0 36 ............................. TGGATTTTTATAGAATTAATAGTATATTTATCAAGT 382163 29 100.0 38 ............................. GAAATTCATCAATTTATCATTCTTTTCAAATCTCACAA 382230 29 100.0 37 ............................. ACTTTTATGGACATATTTTATTTTTTTTGTTATCATA 382296 29 100.0 36 ............................. ATACGTTACAGCAGTAAAGACAGAAATTGGAACAAA 382361 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 382427 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 382492 29 100.0 37 ............................. AAAATATAACTTTGATTAACATAGATTATTCTTTTAC 382558 29 100.0 37 ............................. GTAAAAAAACGTATAATAAAAATAATTTCTATCTCTG 382624 29 100.0 37 ............................. TACTTTTTTCTATATGTAAAGAACTCAACATGGTCTT 382690 29 100.0 36 ............................. TAACCTTGAATCTGCCTAACCCTGTAAAGAGAAAAA 382755 29 100.0 37 ............................. CAAGTAAAAAAACCACTGCCGTCAGCGTAAGGAATCT 382821 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 382886 29 100.0 36 ............................. ATCGCAAGATAGGCTAAATCTATCAAGGAGAGTTGA 382951 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACAAACAGTCTTACCGCAA 383017 29 100.0 37 ............................. AAATATTTTACGATTAGTTGATGCTATAATTCTATTA 383083 29 100.0 36 ............................. TCTTGTGCTCCTTGCGCAATCAAGTTATAAGACTCT 383148 29 100.0 37 ............................. GAAAATAATCTTAATGAAGTAGATTGGAATGAGGTTA 383214 29 100.0 36 ............................. TCTTTTGATTTAGCGTTGTTTGTCCGGAATTTTAAA 383279 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 383342 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 383408 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 383473 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 383537 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 23 29 97.5 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [75.0-83.3]%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 488183-488739 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000001.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 488183 29 100.0 37 ............................. AGTCATAAGAACCAGGAACATACGGAAGGTCATAGAA 488249 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 488315 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 488381 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 488447 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 488513 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 488579 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 488646 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 488711 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 98.5 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACTCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 : 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 [0-4] 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: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 99377-98624 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000013.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 99376 29 100.0 37 ............................. AGGTTATAAAACTATTCTTGATATTACTTATTATATG 99310 29 100.0 35 ............................. AAACGTTACAATTTTTATCTTAAATATATTATATC 99246 29 100.0 37 ............................. ATGAATTTAGATTTTGAAAATTGTAAATCACATGGTA 99180 29 100.0 36 ............................. ATAATTAAAGGCGACATCATAATCACGTATATTATC 99115 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 99050 29 100.0 37 ............................. AAAGAACTTTTAAGAAGAATGTTACTTGCAGGAGAAA 98984 29 100.0 36 ............................. GTTCGTCTATGTTTTGCAATAGCAGGTTTTAGTTTC 98919 29 100.0 36 ............................. TTCGAAAGCGGTAAAACAGCATTATCACTTTCAAAA 98854 29 100.0 36 ............................. TGAAAAATGTTAAGCGTAATATCAAAAATAGCGGGA 98789 29 100.0 40 ............................. CCAGTTACGTCCTTGCTAAAATCTTTTTCAACCCAAGAAT 98720 29 100.0 39 ............................. CTCAAAGTTGGACTAACTTCATCTTTTAATTTTACAAGT 98652 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 12 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTTTTTAAGGTGTTATTTTATGATTATATAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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: 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 [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [86.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 252990-252695 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000004.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 252989 29 100.0 37 ............................. TATAAACTTTTTATATTTATCATATAACAATTTTTTC 252923 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 252858 29 100.0 40 ............................. ACAAGAGCCTATTGACCTTAAAGGATGTTTATACACTAAG 252789 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 252723 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ======================================== ================== 5 29 99.3 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:73.33%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 299991-298590 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000004.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 299990 29 100.0 37 ............................. CATTACCAACAACTTTACCATCCCAGTCATAAGAACC 299924 29 100.0 37 ............................. ATAACTATTATTATTAATATAGAGTTTGAAACAAAAA 299858 29 100.0 37 ............................. AATCATGCAACAGTACGAACGTACAAACCATCAATTA 299792 29 100.0 36 ............................. TTTCTATATCTTGAAAATTTTGTTAATGATGTTGGA 299727 29 100.0 37 ............................. CCTGTTGTAATTCAAGCGGTCAGAGGAATAGAAATAA 299661 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 299595 29 100.0 37 ............................. CCTTGACACAACAGAATAAACATAATATATAAGCATA 299529 29 100.0 37 ............................. TTATTTCTTTCAAACTACTATTTTCATTTAACTTTGC 299463 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 299398 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 299333 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 299268 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 299203 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 299137 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 299072 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 299006 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 298941 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 298875 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 298809 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 298743 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 298677 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [298620] 298619 29 69.0 0 AC........T.A....CAT.T.C..... | A [298604] ========== ====== ====== ====== ============================= ===================================== ================== 22 29 98.3 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # 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: 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 [2-0] 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 87111-86948 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000005.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 87110 29 100.0 39 ............................. TAATAATTAAAGTTTTATTTTTAAAAATTTGTGTGTATT 87042 29 100.0 37 ............................. CTACACTGCGAGTACACTTATTTCTAATATATCAAGA 86976 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 3 29 100.0 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTTAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAACCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAGCCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTATTGGTCTCTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATCCTTTGA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 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 : 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 313875-314041 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000003.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 313875 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 313942 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 314009 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAGCAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGCCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : TCAGATAAATCAATTATAAGATTATATACTATCCTTATACTCTAGTTAAATATATTTTAATCACTAATATAAATTAGTTTTTTTAACAAAACAATAAAAGAGTAAAGTACAAATAATTCCTTTGTGCTCTACTCTTTTTAACTTTCTTTAGACAATAATACAATGATAAATGTAAAAAATTATATATTCCATTCTATAGAAATATGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCAGTTCATATACAAAGTCAATTTCATTGAGAAACATTTAATATATGTTTATAAAAATTTCATACTATTCTTTCATATTTGCATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGCTTGTATATTATTTATATAATCTAATATTTTAAGAAGGTGGTG # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 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 : CTACAATTTGATTAGGATATTATCTTAATTTGT # 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:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0 Confidence: HIGH] # Array family : NA // Array 1 91398-90843 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000007.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 91397 29 100.0 38 ............................. CAACTATGCATATTAGAATTTTCTAAACTAACAAAATC 91330 29 100.0 36 ............................. TACACTGCGGGTCGACTTAATTCTAATATATCAAGA 91265 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 91199 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 91134 29 100.0 36 ............................. GTAAATCTTTTAATGTGGCAAGTATAACAGTAGGGT 91069 29 100.0 38 ............................. AATGCAGCAGTAAAATATGTTGAAACATCAACTCCCAG 91002 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 90937 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90871 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 95.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGCATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAAA # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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 128675-130090 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAACZR010000009.1 Clostridioides difficile strain lsh14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 128675 29 100.0 38 ............................. TACTTCCAAACAAGAAAAACACCCATAATCGCTAGAGC 128742 29 100.0 38 ............................. CGTTTTTTATGTGAATCAAGAACTTTTTGACTAAGTGG 128809 29 100.0 37 ............................. TGATGAACGATAAAACAATTATCAAACTCAGGAGAGA 128875 29 100.0 37 ............................. CACAAGTTACTTTAAAATTAGAAAAACCAATTTCAAA 128941 29 100.0 37 ............................. CTGGGATTATAATAATATACACTTCTTCTAAAGTAAA 129007 29 100.0 37 ............................. ACAAGGTCAGTAACATCACCAGCAATTGGAACATCTA 129073 29 100.0 37 ............................. GTATAACTTTTTTACAATTATTACAAAACTTATCTTT 129139 29 100.0 37 ............................. ACATTTGAAGAACAAAACTTAGACTTTTATAACGCAC 129205 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 129271 29 100.0 38 ............................. CTAGTACCCTTCCACCAGCATCAATTGCATTATCAACC 129338 29 100.0 37 ............................. ATATAAGCAGGAAATAAACCAGCCTTTTTTGCTAATG 129404 29 100.0 36 ............................. CTTGCTGGATTTGAATTTAATATAGAATTTTCTCAG 129469 29 100.0 36 ............................. AGCTACTTAAACACATCAGTAATGGCAAATTATGGG 129534 29 100.0 37 ............................. CAAATTGCTGACAACACTGAAAGCATTATGAACGCTA 129600 29 100.0 36 ............................. TGAGGTATTAAGACGTTGAACATTTGCAGAGCATAA 129665 29 100.0 37 ............................. CGAAAAATACATTCAAGTCCAAAGCCATTGGCGAAAC 129731 29 100.0 36 ............................. TCTGGAATATGAGAAGTTTCTGTAGTACCATAAAGT 129796 29 96.6 39 ...............T............. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 129864 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 129930 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 129996 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 130062 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATATAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAGTTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTATAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%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], //