Array 1 330422-331245 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000003.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 330422 29 100.0 38 ............................. AAAAAAGTCTCAATAACACCAGTCGAAGCAGAAAAATC 330489 29 100.0 36 ............................. CATTGTCAACATCATCTAATTTTTTTGTTACTGTAA 330554 29 100.0 37 ............................. TAGATTTTTTCACAAATAAACTTAACGAGTACAATGA 330620 29 100.0 39 ............................. TAGTTTTAAACTTTTTTTCTGGACATATTACAACATCAA 330688 29 100.0 37 ............................. TATCTTTAGCATTATATTTTTTAGTATCAGATGTGTG 330754 29 100.0 38 ............................. ATCTTTTAATTTTTATAACTAACTATTTACAAATTCAA 330821 29 100.0 38 ............................. TCTATCCACCCCCTTTTTTATAAATTTGCATTAAAAAA 330888 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 330954 29 100.0 38 ............................. AATAATGTTGATAAGACAGCAGAGGAAATAAAAGCTAG 331021 29 100.0 36 ............................. GTTATAGTCTTTTGGATAACTACCCAATTAGGATTT 331086 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 331151 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 331217 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 13 29 97.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTATGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 2 441500-443111 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000003.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 441500 29 100.0 39 ............................. GAACTTTTAAATATAAATTTTTATATTCTCCAACACTTC 441568 29 100.0 37 ............................. CCAACTAGGTGAAAGAAGCTTACCCAAAAGTATCACC 441634 29 100.0 38 ............................. TAATTAATGGTGTTATTAAGTCAAATTTTTGATTTTGC 441701 29 100.0 36 ............................. AAACTCAAAACTTTTTTATTATAGGTATTGATTTTT 441766 29 100.0 37 ............................. TAAATATTCATTTCAAGCTCTTTCATAAGCTCATATT 441832 29 100.0 38 ............................. GTAAGTCACTCTTTGCACGAGAGTGGCTTTTTGCTTTT 441899 29 100.0 36 ............................. TTAGACGAGATTGTTTTTATAGATACAGGACTAGAA 441964 29 100.0 36 ............................. GTTTTGAACGGGTATGACTAGTTTAGTTTCGTCAAG 442029 29 100.0 37 ............................. AAATAACAATTATTAGGAATTTGAGAAGTATTATGTG 442095 29 100.0 36 ............................. AATCACGAAAGTATTAACTACTTCTCGAACAGGCAA 442160 29 100.0 38 ............................. TCCCACACGTATAAATCAATTTGGTTTTCTGCTGTCGT 442227 29 100.0 37 ............................. TGCAAAAAAATCGGATAACCTAGTTCCTCTACAACTT 442293 29 100.0 37 ............................. ACGAGTCTAATATATTTTCGCTTCTTTTATTATTCTG 442359 29 100.0 37 ............................. TTTTTAAAGAATAGGTCACTAAAAAATTTTAATTTTG 442425 29 100.0 37 ............................. TGTGGATTTAAAGATGGAATAGTAACAAAGTATATTA 442491 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 442557 29 100.0 37 ............................. CTATAACTTTTTCGCCAAAAACGTCTTTTATATCATT 442623 29 100.0 37 ............................. TCCAAAAGAACCTCTTTTTCTGTTTCATCAACTGTGT 442689 29 100.0 36 ............................. TTCTTTGAAAAGCATACTTTCTTTATTCTATCTTTA 442754 29 100.0 37 ............................. ATCGTAAATTTTTGTATAGGAGTCATACTTATAAGAG 442820 29 100.0 37 ............................. CAAAATGATTTGAAAATAACAAATATGTCTTTATTAA 442886 29 96.6 36 ............T................ TATAAATAAATAAACAGAAACAAAAATCAAATCTTT 442951 29 100.0 36 ............................. ATCATAAGAACCAGGGATATAGGGAAGGTCATAAGC 443016 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 443083 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ======================================= ================== 25 29 99.2 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTTATGATGGGAATG # 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 : 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 620908-619569 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000003.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 620907 29 100.0 38 ............................. AATTTTTATACGATATAGATATTGATGCTTTAATAGTA 620840 29 100.0 38 ............................. AGATATTTCTTAATAATTGATTGCCTACACTCCTTCCA 620773 29 100.0 35 ............................. GCTACTAGACCAGCTACCACTAACAGTACGAATGA 620709 29 100.0 36 ............................. ATAGTATAAACACTTTCAACCGTCCTTGAAAGTGTT 620644 29 100.0 38 ............................. TTAAGAGCATCTTCTATACCTATTTTAAAGTTTACTGG 620577 29 100.0 37 ............................. TTGCTATCTGAGTATTAATTTCTTCTATTTCTTGCCT 620511 29 100.0 37 ............................. ATTATAATATGTAACTATATCTAACTTTTATATTATC 620445 29 100.0 37 ............................. GTATGTCTTTTAAAGTTGCTAATACAACTGTTGGGTC 620379 29 100.0 36 ............................. TGAATATCACTACACCAAATTTTTAGACATTCAAAC 620314 29 100.0 37 ............................. TAATTAGTGGTGTTATAAGACTCATTTTTTGATTTTA 620248 29 100.0 37 ............................. TTGACTTACTATGTATTACTTCTAAGTTACTTATATC 620182 29 100.0 38 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTTT 620115 29 100.0 36 ............................. AAAAATAGAACAAATTATGGAAAAATACTAGTAAAT 620050 29 100.0 37 ............................. TCTCATCACAACACTATATACATAGTAAATTAACATA 619984 29 100.0 35 ............................. GCATGTTAAAGTGGCTAATTGGAACTATGATTACA 619920 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 619859 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 619794 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 619729 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 619663 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 619597 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 21 29 99.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [3-0] 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 239626-240121 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000001.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 239626 29 100.0 38 ............................. AGTATTTCAGCAATTTTACTTTTAATAACTTTATCAGC 239693 29 100.0 37 ............................. TCAATTTACCGTTTTTTTCAAATCTCACAACATCAGA 239759 29 100.0 37 ............................. CTATCGGCTTCTTGAAAAGCCTCATCTGCTCTATTTA 239825 29 96.6 37 ......C...................... TTCATTAAATCCCCAACCGAATTATCTTTCAGCATTT 239891 29 100.0 39 ............................. CATGCTGATAAGAATCTCTATGAACTTCGGAGGGAACCG 239959 29 100.0 37 ............................. TTGGGTATTTTGCTAAAAATAAAGCTATTAAATTAGA 240025 29 96.6 39 .C........................... CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 240093 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 8 29 99.2 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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 : 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 [0-1] 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 2 485168-485913 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000001.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 485168 29 100.0 36 ............................. GAAATTAGTTGAACTATTGCTTGATATTCCATATAC 485233 29 100.0 37 ............................. CAATAAACCCAAAAACATTTAAAGAATACATGTTTAA 485299 29 100.0 36 ............................. TGCTTACGAATGGTTGGAATTACATCTATTGCTAAC 485364 29 100.0 35 ............................. TTTCTTTAAAACAGACATCAATTTCGTTATATCTG 485428 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 485493 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 485559 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 485625 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 485690 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 485755 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 485820 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 485885 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 98.9 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAGCGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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: 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 3 865334-865624 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000001.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 865334 29 100.0 36 ............................. CATAAGCACTCAAAGGATTTGAAATATAAGAATAGG 865399 29 100.0 37 ............................. AGTATTCCTTCTATTAAATTAGATTGGACTCCAATTA 865465 29 100.0 36 ............................. TCATAAATATTCATTTTTTCTCTCCTTATTATTAAA 865530 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 865596 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 99.3 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # 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:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] 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 [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 10278-11093 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000015.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 10278 29 86.2 37 .AG..........A.T............. TGACTTTCATATGCTCTTTTATCAGCTTCTGACATAA 10344 29 100.0 37 ............................. ACTGGTAAAACTCTTAATGTATATGTTATTTGTAAAG 10410 29 93.1 36 A..............T............. CAGCTTTTTCTTTTAAGCTACATAACTGATTATACT 10475 29 96.6 36 A............................ TTCATAACTTGATTTGATTCATAACTTGTAGCCATT 10540 29 89.7 38 .........C.....T............T TGTCTTATTTTATTATTAAAGTTTTCTTGTTCATTTGT 10607 29 93.1 37 ...............T.....G....... GAATTAGTAGAGTACAAAAATTTAAAGTCAGAATTTA 10673 29 93.1 37 ..A.........................T TCAAATATAAAAGACTTTACATCTTTGCCATCGATTG 10739 29 93.1 36 .............A.T............. AAGGAACTTTTAAGAAGAATGTTACTTGCAGGAGAA 10804 29 96.6 37 A............................ TCCACATCTGCATCTTTACTTATGTTATTTGTATTGT 10870 29 100.0 37 ............................. TCATTTATCATGTTCAATCTAGCATTCGTACTAGTCA 10936 29 100.0 36 ............................. AATGGAGCTATAGTAGACAGCATTGATACAAATATT 11001 29 96.6 36 A............................ TTTGCAATAGCTTGTTTCATAAGATATACGCATTGA 11066 28 86.2 0 ...............T....-..T....A | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 94.2 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TAAGAAGTTAGATATACAAGATAATGAAAAGTTAGTAGTACTAGAGAGTAAAAGAGGTTGGAGTGGAAGTGTCAATAAGTATTCACAGAGTGTAATAGATAAAATAAGACATTGGATAGGTGAAAACAATAAGCCTGCTAAGATACAAGGTGAGAAGAAGAATTTTCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTATTTTAGTTTATTTTGGGGGGATTAATACAATGATTGAAGATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAGTATTTTGTGAAGTTTGCTAATGCATTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAAATAATATAGATAAAGCACTTGAATATTATGATGTTTCAAGTGCTTTGTTTGTTAAAAAATGATATAATATAGGTAA # Right flank : ATTAAAAATAATGAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGATTATTTGGGGGTAAAGAACCATGCAGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATTTATGTAATAATTGTTTTATTAATTTCACAATATTTTCTAGAGAAAGATTAAAAGCAACTAGTGCAATGCAAGTATTAGCTGACCATGAAGGGATAAGAAAATTTATAAATTTTTCTAAAACAAATAGAGAACTATTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTGTATCCATTGATGAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAGAATGTATATGCAATTGATGAAATTATGCAATTTGAACTTTTAGAAGATGGAGA # Questionable array : NO Score: 5.34 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.37, # 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:81.48%AT] # Reference repeat match prediction: F [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: NA [5-5] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [76.7-76.7]%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 432333-431650 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUMR01000002.1 Clostridioides difficile strain VRECD0139, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 432332 29 100.0 37 ............................. TTTAATATTTTTTGATAATACTCTTCAATGTAGGTCA 432266 29 100.0 36 ............................. TTGCTACTACATTCCTTCTAATTTTTTCTTTTTCAT 432201 29 100.0 37 ............................. TTTTTCATTTTTATTTTTTTAGTTGCATTTTCAACTG 432135 29 100.0 37 ............................. TATTTTTTAGCTTTTTCTCTATATGTACCAATATCAC 432069 29 100.0 36 ............................. TAGAAATACAATTCGGAACTTGTTTCTGTTGAATTT 432004 29 100.0 37 ............................. AGGTTTAAAAACCTCTGTTCTTCCACCATAATACCCA 431938 29 100.0 36 ............................. AATATAATTATAACACAGGAGTTCCTTAAATGAAAA 431873 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 431807 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 431742 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 431678 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 94.4 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGATTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # Questionable array : NO Score: 5.98 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [18-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-75.0]%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], //