Array 1 50459-48719 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000012.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000012, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 50458 29 100.0 35 ............................. GCTCTTGTCGCAGTTGCTCCTGAAATTATTAATGT 50394 29 100.0 36 ............................. AAAACAAAAGGAGTGGTAAAAATGGCTAAGAAAAAA 50329 29 100.0 37 ............................. CTATGACGTAAATAGTCTATACCCTTATGTGATGAAG 50263 29 100.0 38 ............................. TGGTTGCGATTGGATTATTAGTAGCTGGACTTGTACAT 50196 29 100.0 38 ............................. TTTTAAATATACCAAGATTTCCTAAAAAAGTAGAAAAA 50129 29 100.0 37 ............................. ATCAATTCTATTTTTATCAGAAAGCGTTGAACGAGGA 50063 29 100.0 37 ............................. TGGATAGATGCAGAGGCTGACAAAACTAAAGTAGTAA 49997 29 100.0 38 ............................. GAGCCTGTCATACCTGCTATGAAAACATGCTCGTCTGT 49930 29 100.0 37 ............................. AAATTTCTTGCTATTTTACAGTCATTGTCATTGTCGC 49864 29 100.0 37 ............................. TTTTTAATTATTATGTCATCACCTAGTGTAACCTTAT 49798 29 100.0 37 ............................. CACATTGGCGTTGAAGCTGTTAGCAAAGCATTAAAAG 49732 29 100.0 36 ............................. GTAGCCTATTGTTTGGCTTCCTGACATTTCGTAAGA 49667 29 100.0 36 ............................. TTTTAACTATATTAAATAAGCGAATAATTAAAAGGG 49602 29 100.0 35 ............................. TTTAAATGGTGTGAATGGTGAAAGGCACACAACAC 49538 29 100.0 37 ............................. CTTCCTGTAGGTGCTACCATTAATACATTTTTACCCT 49472 29 100.0 36 ............................. AGGAGATAACTTCTATTAAAGATAACTTTGATGTGG 49407 29 100.0 37 ............................. ATGTAAAGTTTAGCAAATTCAATAGTATCCATATTGT 49341 29 100.0 36 ............................. TGGACACAACAAAAATTTTTCAAACCTTTTAAAAGA 49276 29 100.0 36 ............................. AATTTCTGTGCTAAAAATTTAGTTACAGAATATAAA 49211 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 49145 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 49080 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 49012 29 100.0 37 ............................. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 48946 29 93.1 38 ...............T.C........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 48879 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 48813 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 48747 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 27 29 98.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 164801-165357 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000001.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 164801 29 100.0 36 ............................. TTTAGTCTCAAATTCTATATTAATAATAATAGTCAC 164866 29 100.0 38 ............................. AAATTTTACAATGTAATAAAACTACATTAGGGCATAAG 164933 29 100.0 36 ............................. TTATTATCTGAGACTTCTTACTGTTAGCTTCAAATA 164998 29 100.0 37 ............................. ATACGAAAAAGCAATATCATAATCACGTATGTTATCT 165064 29 100.0 37 ............................. ATAAAAAAACGTATAATAAAAATAATTTCTATCTCTG 165130 29 96.6 36 ............................T TTCAAAAGTTATAATATAATAGACTAAAAAACTGAT 165195 29 93.1 37 ................A...........T ATTATTTCCCCTCTATCACCATTTAATTTAGGTTCAT 165261 29 93.1 39 ................A...........T CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 165329 29 93.1 0 ................A...........T | ========== ====== ====== ====== ============================= ======================================= ================== 9 29 97.3 37 GTTTTATATTAACTATGTGGAATGTAAAC # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTATTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCATTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAA # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GTTTTATATTAACTATGTGGAATGTAAAC # Alternate repeat : GTTTTATATTAACTATATGGAATGTAAA # 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 247587-247807 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000001.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================== ========================================== ================== 247587 24 100.0 41 ........................ CAGGTTTGATGGAAATAAAATAATAATAGAAAAAATAGAGG 247652 24 100.0 42 ........................ CAGGTACATAGCAAAAATAATTATAAGTTGGAGATTTTGTAT 247718 24 95.8 42 ....................A... CAAATATTGATATAGTAGATATAATAGAAGTTTTATTATTAG 247784 24 83.3 0 ......A.........TC..A... | ========== ====== ====== ====== ======================== ========================================== ================== 4 24 94.8 42 GTTTAAGATTAACTAAGTGGGTTT # Left flank : TTTGAAGAGAATTTTATAAGTTGTGATAAAGAAATTAAGAATATTTATGGTGTAAATAAAGAAATTTTTGATGGATTGGATTTAATTTTTAATTTTGAACCTTACAAAAATATTGTTGATAGTAAGAAGGAAGCAGCTAAAATTTTTAGAGATGTTGATGTTAGTTACAAAATTATTCTGGAAGAAGATTTTTATAAGGAAGATAGAGAGTTACAACAAGATTCGATTCAAGTATCAGGGTTTATATTTAATAGATTATATTATTATGGGTTAATAAGCAAAGTAGAAGGATACATGGTACTAAAATCTAGTAGTAAGTTTGAGTATAATAGTACTGTAGGCTTAATTTTGAAGTGAGCATATGTTTAAATATAATATACCTTTAGACATTGAAAATACAAAAAGTACTACTGTAAGTCCACTGTAAAAACTATTTTTTAAAAGGAAAAATAAGTTGTGAGATAGAGTGTTTACAAGTGTATATAGATAATAAATTTGAG # Right flank : TTTAAATATTCTGACTATTGTATAAGGATATTATTAGCTTGAATTTAAAACCAATAATATAAAACAACAAAATATTATATTTATGATATAATAAAAGTTATGGAAAAACAGGAATATTACTATAGAGAAGAGAGGTAAACTTATGAATAATTGGATAGAAGTAACTATAAAAACAACAACAGAAGCAGTTGAACCTATAACGAATATACTATATGAACAAGGAGCTGGAGGAGCTGTAATAGAAGACCCAAAAGACTTTTTATTCCAAAAGAAAAATGAACTAGACTGGGATTATGTTGAAGAAGAAGTATTTAAAAAGAATGAAGAAGATGATGTTCTTATAAAAACTTATGTTTCTGAAGAAAAAAATGTGATGGAATTTGTCGAAATAATAAAGCAAAAAGTTTTAGGATTAAAAGATTTTGGTATAGATATAGGTGAAGGAAGTGTATCATTGGACCAAGTAAATGAAGCTGATTGGGCAAATGCATGGAAAGCAT # Questionable array : NO Score: 2.60 # Score Detail : 1:0, 2:0, 3:0, 4:0.74, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTTAAGATTAACTAAGTGGGTTT # 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:70.83%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 [75.0-81.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 5905-5478 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000021.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000021, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 5904 29 100.0 37 ............................. TCAATTAAATTATTATATTTTAATGCTCTTTTTAATC 5838 29 100.0 38 ............................. GCAGAGTTGATAGTACTATTAAAAGAAGAAAAGTTAAG 5771 29 100.0 36 ............................. CTATAACTTTTATTAATTTTTGTTTCATAATCTTTC 5706 29 100.0 38 ............................. TTAATCTTTAAAATTAAATATAAAAATAAGCTAGACAT 5639 29 100.0 36 ............................. TTAATAAAACTGATAGTAAAACTACTAATAATAAAG 5574 29 96.6 39 .................A........... ACTTTTAAAAATTATTTAGCGTTATATTGCTGCATAAAA 5506 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 7 29 99.5 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTAATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAACCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAGCCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTATTGGTCTCTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATCCTTTGA # 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 : 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 23676-24104 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000023.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000023, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 23676 29 100.0 36 ............................. CGACCTTGTGGTTCCATAGCAACTATATACTCGTAC 23741 29 100.0 37 ............................. TATAAAAAGTCACTATTTCAGTCTCTTTACTCTGCAA 23807 29 100.0 38 ............................. TAATCTATCGAGGGCAAAACAGGAGCAGGGTCAACAGC 23874 29 100.0 37 ............................. ACGTACGTTGCATGTTCTTTAACAAAAGCATCTAATT 23940 29 100.0 40 ............................. GTATATGTCATTGCGACTGCTGAAACAGATAATGTAGCTA 24009 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 24076 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ======================================== ================== 7 29 98.5 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGAATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGATGGGAATGGG # 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 : 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [71.7-83.3]%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 1 5497-5271 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000027.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000027, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5496 29 100.0 37 ............................. TAGATTTTAGTCGTTTTTAAATTTTTCTCGTAATATA 5430 29 100.0 36 ............................. ATATAAAAAGTCACTATTTCAGTTTCTTTACTCTGC 5365 29 100.0 37 ............................. TCTATAGGAATTGCAATAGCTGGTGTTGTTGGCGGAA 5299 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 100.0 37 GTTTTATATCAACTATGTGGTATGTAAAA # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTTCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCTAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCAGAGAAATGAGCAAACACATCATCTCTACC # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTTTATATCAACTATGTGGTATGTAAAA # 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:76.67%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] 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 [0.41,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 185693-185401 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000006.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000006, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 185692 29 100.0 39 ............................. TTTTATTATCGAATGTCTGAAGAATTTTCTGATTTGCGA 185624 29 100.0 36 ............................. GTTGCTCCCAGATGGGAATTACCTATTTTGAATAAT 185559 29 100.0 36 ............................. TCTGAACAAAGCTTGTAATCAATCATCTTTTATCGT 185494 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 185429 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 5 29 97.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAATTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 8644-7762 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000039.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000039, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ======================================= ================== 8643 28 100.0 38 ............................ TTGTGATTCCTCAGCTCTCTCCTTTAAGCTACACAACT 8577 28 100.0 37 ............................ TTAATAATTATGGAGAGTTAGGATTAGGTGATACTAC 8512 28 100.0 38 ............................ TTTAAAAGTTACTACACCAGTTTTAGTAGTTCCAGCTA 8446 28 100.0 37 ............................ TAAGATACAAGAAGAATTTTCAGTAGAGGATAAATTA 8381 28 100.0 37 ............................ GCCAGAAGAAGCCGCATCTGCAATAAAGAAGTATGGA 8316 28 100.0 38 ............................ GATTGAAAAAACGTCCAAATAGCAATATAATTTAATTA 8250 28 100.0 39 ............................ GATTTATGTCTGATTTGTGTCCAAAAATAACCGATTTGT 8183 28 92.9 38 ................G...T....... GACACCTCCAAACACTGCAATTTCTCCTGTTTTCAATA 8117 28 92.9 37 ................G...T....... GCCTATAGGAAGCTTAACTATATGTTCATAAAAAACA 8052 28 92.9 38 ................G...T....... TAATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG 7986 28 100.0 38 ............................ TATTTTTGATGATTTAAACATTGATAAAAGTATGAAAC 7920 28 100.0 38 ............................ TGATAACAAAGCTTGCAAAGTAGATATTTGTGTTTTTC 7854 28 100.0 37 ............................ TTGCTGTGATTTCACTAATAAAACAATTAATAATTGT 7789 28 75.0 0 ...A............G....GAAA..C | ========== ====== ====== ====== ============================ ======================================= ================== 14 28 96.7 38 GTTTTAGATTAACTATATGGAATGTAAA # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAGTAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTACGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTGAAATAATTAGAAAAAATTAGTAAAAACTAGTAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAGAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAAAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGTTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAGTATACGTCATTCCTTAAAAAAATTCAATTAAGGAGTGTAATAGTTATGGAAAATTTAATAGTAAAAGAGTTTAATG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAA # Alternate repeat : GTTTTAGATTAACTATGTGGTATGTAAA # 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:78.57%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 2 9801-9246 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000039.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000039, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 9800 29 100.0 37 ............................. TGTTTTCTTCTCTCTGTTACTTCATCTTTTGTATCTA 9734 29 100.0 36 ............................. AACATAGTAATATATGACCAGACAGGTAGAATAATC 9669 29 100.0 36 ............................. ACAACAGCACCATACAAAAACCCATTTCTAAAAAAC 9604 29 100.0 35 ............................. ATTTCTGTCTTTACTGCTGTAACGTATTGGTATGG 9540 29 100.0 37 ............................. GACTTTGAAGAAAATAATTTAGTTATATCTTGGGAAG 9474 29 100.0 38 ............................. TAACCTTTTTATTGTTGTTGTTATTCTTATTGTTATTC 9407 29 100.0 37 ............................. TTTATCATTGTGTAATGCTCTTTAGTAATAGAACCTA 9341 29 100.0 38 ............................. TTTACTGCATTTATACCATCTACACCTTTTATTTTATT 9274 29 89.7 0 .....................C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 98.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTGTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAGTAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTACGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 60056-59568 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPI01000008.1 Clostridioides difficile strain 5492-M/ST15 5492_contig000008, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 60055 29 100.0 37 ............................. TACGGAGCGACCGTGCTTAACACTGCAATAGCATCTG 59989 29 100.0 36 ............................. ACTTATGAAAAAAAGAAAAGGGGATTGGGACAGCGA 59924 29 100.0 37 ............................. GAAAATCAAACTCTTGTGTGCATCGACGAAGGTGGTA 59858 29 100.0 36 ............................. GTTATAGTCTTTTGGATAACTACCCAATTAGGATTT 59793 29 100.0 37 ............................. AAAAATATTATAGATACAAAAAAAGATTCAGAAAACA 59727 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 59662 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 59596 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ===================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAAA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [75.0-63.3]%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], //