Array 1 28249-27298 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000002.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 28248 29 100.0 36 ............................. TAGAGTAATATGAGCTGTTAATAATAGCAACCAATT 28183 29 100.0 37 ............................. AAAGCTTTGGCAGCACTGATAAATAAAGAAAATGTTA 28117 29 100.0 37 ............................. TTCATAAAACCTCCTTATATATTTATAAATTAAATTC 28051 29 100.0 37 ............................. GATATATCAGCAGAATTTATAAATAGGATTAACAACA 27985 29 100.0 36 ............................. AGAGATAACAATATTTTAGGAGGTGATATATTGGCT 27920 29 100.0 38 ............................. GTACTAAATAAAAAAGGGAAAGCAACAGGGCAATACAC 27853 29 100.0 37 ............................. TGAATCTGACGAACTCTATATAAAGCAAAAAATAAAG 27787 29 100.0 36 ............................. ACTTAATACATAAGATGAAATGACCTTTTTTACTTC 27722 29 100.0 37 ............................. TATAATGATGATGCTAGAGAGCCAAGCGGAGTATTTG 27656 29 100.0 37 ............................. TTGAAAGAAGTTCAAGAGATTCAAATAACTACACTAC 27590 29 100.0 38 ............................. CTTGTAATCGCTGAATAAAGATTTCTAGCTTCGTTATT 27523 29 100.0 37 ............................. TAGGATTGACACGTTACGACCGTGCAACGTTGGACTG 27457 29 100.0 37 ............................. GTTTTTTCTTCGTAACTTTGAGCCTTACATCCACAAA 27391 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 27326 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATACTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTATTCGTGGTTCACTGCAAATTTGAGAGAATCGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGACACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAAAATTTTAGCAAATATTATTAACCCATCTTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATCCTTTGATTTACATCCATACATAATTATCTC # 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 : 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 [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 36963-37254 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000001.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 36963 29 100.0 37 ............................. GAAATAGCGAGAATTATTGTGTCTATAGGAGCGGTAG 37029 29 100.0 36 ............................. TTGTAGCAGTTGATTTATTTGCATTAGCTTGTGTTG 37094 29 96.6 36 A............................ TTTATTTTACTTGTAATTCCTCCAAGTATACCACTT 37159 29 96.6 38 ...............A............. CAGATGAACGTAATAAGTTCGCTGAAATGGAAGCTAAA 37226 29 86.2 0 .....................C.AA...T | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.9 37 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : GGAGGTACAAAGTCACTAGAAAACTTTCATCAAGAGTCCACAGATATTGAGGATTCTAAATCAAGTGATAATGTACAACAAGATGCCTAGTGAGATATTAAGAATTAAAGATGAATATACTTCTTTTTGTTTCGATGAAGCTTGTATGTTTTTAGTAGATGCTATAAAAAATGATAAAAAGCTTAAATTTGAAAATAATGAAAAGAAAACTATAGATAAAAATGAGAGAAAAACTTTTGTCCAAATAGCATTAGAGAAAAAGAAAAAAGTTAATAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATACATTGGATGTAATCATTGAAATTACTACGATATAAGCATATTTTGTAATATATCAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGTAAGAACTGGAAATGCTTAATTTATTTTGGG # Right flank : TTGAATAAACGCACAAAACACCTACTTAAACATATAGGTGTTTTTAGTGTAAATATTTTTAAATAATTGGATAAATTTTCTAAATCAATAGACTAAATTATTAATTTTAGATAGAATTATATTTGAATAAATAATTTAATAGGGGAGATTATATTATGAAATTAACAAAAAAAGTATTAGTTTTGAGCATAATAGCATGTTTTTCTGTAATGATGTTTATGACGGGATGTACTAGTTCACCAGAACCTAAAATGGAGGAAGTAGGTCAAGAAGTACCAAAGGAAGAAGAGGAAGAAGTATCAACAGAAGATAAGGTTGACCTAAATAAATTTAATCCAGATGAACTTCTAGATTATCAGATGAATGAATTTAAAAAGAGTTGGAAGACGCTACAGGGAATAGAGAAAAGTGCAAAAGAAGGAGAAATAACTAGTGATAACTTAAAAACGGGAGCTGATTTATATGAAGCTCGTTTTAGGGATTTATGTGAAGAAGGCGAG # Questionable array : NO Score: 5.78 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTATTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 39551-38463 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000024.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 39550 29 100.0 39 ............................. AATATCTTTTATAGACTCTACATTTTCGACAATATAAGT 39482 29 100.0 36 ............................. ATCGCGTTGGCGATTATGGGTGTTTTTCTTGTTTGG 39417 29 100.0 37 ............................. TATAAAAAGTAACAATTTCGGTCTCCTTGCTCTGCAA 39351 29 100.0 37 ............................. GTACTTCTAATACAACGTCAAACTTAAAGTTACACAC 39285 29 100.0 37 ............................. TTTCATATTGGACTTTTGCACCAACATCCTCGAAGTC 39219 29 100.0 36 ............................. TAAAAGTGGTTACGGGCTGGGGGCAAGGTGATGGTC 39154 29 100.0 36 ............................. TCTAGTTGCAACATCTATTCTATTTGTCCAACCAGT 39089 29 100.0 38 ............................. TTGATTTCTGGAATAGATTTAAGAGAAAGGTTGAACGT 39022 29 100.0 37 ............................. AATTTTCTATGTTGAGTAAAAAATTCTATCCAACCAA 38956 29 100.0 36 ............................. GACCCAGACCCTAATCCTCCTGTTGACCCAGATAAT 38891 29 100.0 38 ............................. AAAGAGGTGATGTCTACTTTTAGCTTTGAAACATACGA 38824 29 100.0 38 ............................. ACTACTATTAGATAAGATTCTAGCATTTTTATTTTTAG 38757 29 100.0 37 ............................. TAACTTCTTGGTACTTTCTATACCAGTTGTTACCTTA 38691 29 100.0 38 ............................. ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 38624 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 38558 29 100.0 38 ............................. CCGTCTTTTGTTGCTTTACATAAATTTATATTACTTAT 38491 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ======================================= ================== 17 29 99.2 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 117794-118482 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000004.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 117794 29 100.0 36 ............................. TCTTTTGTTTTCTTTATTTCTATTCCATATTTATTC 117859 29 100.0 38 ............................. AACTTTTTTATATTTATCATATAACAAATATTTACAAT 117926 29 100.0 36 ............................. AAGTTTGAACTGCTATCGCTTCAACTTTTCCTTGTA 117991 29 100.0 38 ............................. TTTTTATATTATTCTATGACCGTTTGGTCATATATTTA 118058 29 100.0 38 ............................. ATGTATTGCATTATTTTCAAATCTTCTACTCTTGGTAT 118125 29 100.0 37 ............................. ATGCTAGGTATGATTTCAAGCTTCATTTGTCAGTTGT 118191 29 100.0 37 ............................. TGGGGGGGCTATAAAAGTAGTTAATGGAGTATATAAA 118257 29 100.0 37 ............................. AGATAAAATATCTTGGTTTATTTTTTTGCAAGTGAGG 118323 29 100.0 36 ............................. AAGTCACACCGTCCTCCACACGACACTATAATAATA 118388 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 118454 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTGTTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCGCTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAATATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # 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 : 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 5011-4586 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000045.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 5010 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 4944 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 4878 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 4812 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 4746 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 4679 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 4614 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 98.0 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACATAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAGGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAATGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 5416-5255 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000049.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 5415 29 100.0 36 ............................. AAATTCCTTGCTATTTTACAGTCATTGTCATTATCG 5350 29 100.0 38 ............................. TTTTTACTACTTCTCTAGCAGGATATTTATTTTTAAAT 5283 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ====================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAAGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 1263-183 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000075.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1262 29 100.0 38 ............................. CATACTATGAGTACCTATATTTAATTTTATCCTACAAG 1195 29 100.0 37 ............................. ACTTTGATTTCTATCGCTAATGTGCTTTATGTCACTA 1129 29 100.0 37 ............................. TATTAAGGGTACGAATTTGTGTTTTTAGGACAGAAGA 1063 29 100.0 37 ............................. TGTTATTATATTTAAAACATATATCCCCAATTAAATT 997 29 100.0 37 ............................. TCATAAATAACGACATTTCCACGAGTAAACATACAAC 931 29 100.0 36 ............................. TATAAAACATGTATTTCATTAGAATAAGTATTCCCG 866 29 100.0 37 ............................. GGAAATATAATTCAGACTGTTGCTGTTCCAAAAAATA 800 29 100.0 36 ............................. ACATTTTCAGCTAACGTTTTAAAAGGTGTATTACTC 735 29 100.0 36 ............................. CAAAATTCTGTTATTTCTTGAATTTTATCGCTTAAA 670 29 100.0 37 ............................. AAATATGGTAAGTAAAGTTGATGATATTGAACTAGGA 604 29 100.0 36 ............................. TTTAAAAGAAGAACCTTTTTTGGAACAAGGAAGTTG 539 29 100.0 37 ............................. ACATCTGCGTCATATCTAAATAAATTATCTCCAACTT 473 29 100.0 36 ............................. GCATATTTAGTTCCTTTTGTAGCATCTAATAAAGAC 408 29 100.0 36 ............................. AAGACTTGCTAGGACTTCTATAACACATGCTTTTGT 343 29 100.0 36 ............................. CCATATTAGTCCAATTTCTTTGGCTCTCTGGTGGAT 278 29 96.6 38 .................A........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 211 29 96.6 0 .....G....................... | ========== ====== ====== ====== ============================= ====================================== ================== 17 29 99.6 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTATGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAAT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # 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 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [2-0] 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 72593-73606 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000009.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 72593 29 100.0 37 ............................. TAGAACATGAATAAAGCAATTTAGATTTAATCATATT 72659 29 100.0 37 ............................. TCAACTTACCATCCCTTTCAAATTTTACAACATCAGA 72725 29 100.0 36 ............................. ATATCATTGCTAGTTATAACTTCATTAGCTCTCTTC 72790 29 100.0 36 ............................. CAGATGGAAGTTGAAAGAGTGAGTGTGCCAGGCAGA 72855 29 100.0 36 ............................. AACTTTTTCTTCCTCTGCGTCAATTACATCATCTTC 72920 29 100.0 37 ............................. CTATAAAAATATATCACAAAAAATACCTCCAAACTTT 72986 29 100.0 37 ............................. CCATTAAAGTTTAGTTTAGCTATTTCACTTAAATCAA 73052 29 100.0 37 ............................. GTTGGAAAGTCATATTTTATATTTTCAGGATTATATA 73118 29 100.0 36 ............................. GAGCTTATAAGAGGTTTCTGCTTTTTGCTTTCCTCT 73183 29 100.0 35 ............................. GTTAATAGTGAGTTAGCAAAATTCTATATAGAACT 73247 29 100.0 38 ............................. TTAGATACTGTTCAATACCTTCTTCAACTTTACCTCTA 73314 29 100.0 38 ............................. ATATCTATTTTATCGAGGTATTTGTCTATTTTATTTTT 73381 29 100.0 37 ............................. TAAAAAATACAAAGAAGAATTGTACAATGAATTTTCT 73447 29 100.0 36 ............................. GTTGCATTTGTATATCCTGTACCATCACCAATTATT 73512 29 100.0 37 ............................. GGGTGGGAGATATGGCAACTATCCACACATGAAATTG 73578 29 82.8 0 ................G....T.CA...C | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 98.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : GAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTGATTGGTGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTCTATGTATCAAAAAAGTAAAAAGCCACTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAAATTTTCATTTAAGTTCAAAAAAAATAAGCATTAAATTGTTTAGAACTTCACTCTACTTCCAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGGAAATACTTAGTTTATTTTGGG # Right flank : CTAAATAAAGAAAAGAAAGCACTTACAAACATGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTTGCTACATAAATTATAATATAATTGTAGCAACAAAAGTGAGGTGAAATAGATGCCACAAAAAAAGATGGGTCGTCCAACAGAAAGTGTAAAAGATACTATGATTAGAGTAAGAGCTGATAAAGATACTATTGATAAGTTAGATGAATGTGTGAATTTATTAGATAGTAATCGTTCTGAAATAATAAGAAAAGGTATAGACAAAATATATGATGACCTAAAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTCCCACAAAGAAGTTAGTACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATGATTTACAAATATTTAAAAGTGAAGA # 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 75204-75866 **** Predicted by CRISPRDetect 2.4 *** >NZ_CZZI01000009.1 Clostridioides difficile isolate VL_0079, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================================================================================================================ ================== 75204 29 86.2 36 GA.............A............G GCTGGAATTAATGCGACTACAGTAGAAGAAAAGAAA 75269 29 96.6 37 ............................G GCATTTCGGCATATGACAACTGCTATGAATATAGTAC 75335 29 100.0 38 ............................. GTTCATTTGTATTTCTTCCAATTTTCTGTTCTATCCTA 75402 29 96.6 37 G............................ AATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG 75468 29 93.1 144 G.....G...................... GATAAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAGAAAAGAAAGAGAATAAATAATATAGATAAAGCACTTGGATATTGTATAGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATAGAGATAA 75641 29 82.8 37 GAG............A............G GTTTGAGAACGCTGTATAAAGCTTGTAGCTAGTTCTT 75707 29 89.7 37 G..............A............G GTTGCATCATTAAATATTTTCCCTACAAACTCTTTTC 75773 29 100.0 37 ............................. AGTACATACAAAGAGTCTATAAAATTATCTATAAAGG 75839 28 82.8 0 G...................-.CT....A | ========== ====== ====== ====== ============================= ================================================================================================================================================ ================== 9 29 92.0 50 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : AAAGAAGAAGAAAAACTCATAGTATTAGCAAATAAGGATAATTGGAATGGAACTACAACAAAGTATACACAAAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAAAATAATAGACCTACTAAAATTCCAGGTGAAAAGAAGAATTTTCATGTAGTGTATAAAATTGAGTAAATTTATCAGTTGTATTAAATAATTTAGTTTAGTTTATTTTAGTTTTGAGGGGGATTAATAAAATGCGTGAAAGTTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTAAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGTGAAGAAAAGTTTCAAGAATATGCAGAGATATTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTATTTGGTATAAAATGGTATAATGGAAGTAGG # Right flank : ATTAAAAATAATTCAAAAACACTTACAAATGAGTAAGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACTAATATAGTATAATATTGTTAAAGAATATAATTTAGGGGGATATTATATTATGAAGAAAAAAGTATGTTTTTTATTTTCTATTCTTATAGTTATCTGTTTAGCTATTGTAGGATGTTCTAATTCAGAAAGTCCAGAGGAGAGTAGTAAAAATAATGAACCAAAAAAAGAAGAAAAAAAGGATAAAGAAGTAGTCATAGGAGAGAAAATTATTTCAGATAAAATGGAAATCACTATTAATAATATTGAATTCTCTTATGATGTTTTACCAAAGGTTAAGGAAAGTTTATATACACATTATCCTGCTGAGTCAGGCAAAGTATATATTGATATTGCTGCTGATATAAAAAATACTCAAAAACAAGAGTTAAATTGTTCAGATTTACTAACTATTGAAGCAAATTATAATGATGGGTATAAA # Questionable array : NO Score: 3.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.60, 5:0, 6:0.25, 7:-1.36, 8:1, 9:0.41, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : TTTATATTAACTAAGTGGTATGTAAA # 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:80.77%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //