Array 1 48-205 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000189.1 Clostridioides difficile strain JV63 001 JV63_contig_232, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 48 29 100.0 36 ............................. GCACATTTAACCTCTAATCTTAAAGTATTAGTCGCA 113 29 100.0 35 ............................. GCGAGACTTACAACTTAAAGGCTCTAATGAGTTAC 177 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ==================================== ================== 3 29 100.0 36 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : GGTATGTAAAGATAGGAAAACGCAACATCATAATCAACTATATTTTCG # Right flank : TTTGCCATCTCAATATATATTTTGACATTTATTCTCGTT # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:70.97%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [55.0-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 13998-13712 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000011.1 Clostridioides difficile strain JV63 001 JV63_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 13997 29 100.0 37 ............................. CTGACTACACTCTTTATTTTACTAGCAGCAGAAGAAA 13931 29 96.6 37 ...............A............. GTCGGACTTATTATCATAGATATCCCTTTTGCCAAAA 13865 29 96.6 35 ............................A ATTGTTTTAAATTGATTAAGTACATCTGTTGATTT 13801 29 75.9 32 A.................AT...AC..TT AAATTAAAAAATATATTTGAGTTAGAGAGGGA 13740 28 72.4 0 .....T....CGT...T...A.-.....A | G [13732] ========== ====== ====== ====== ============================= ===================================== ================== 5 29 88.3 36 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : TGTAAAGAAGCTGTATTTGTAACTGAGGGAATTGAATATCAAGTGGCAGATGGTGATGGAAATGTGCTACAAACTTATCCAGTAGACGATTCAACTAGAATGCAACAAGAAACAACAGCAGGTACTAAATCAAAGGGAACAACAGCGTTTGCTATAACATCAGACTCAAATGCTGTAAAAATAATTGTAAAAGATAAAGTAAATAATAAGGTCATGGGAGAAATAAATGCTACTTTAGAATAAAAATAGTATTAGAGAAAAGAAAAAAGTTAACAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATAAATTGGATGTAATCATTGAAAGTGCTATGATATAAGCATGTTTTGTGGTGTGTGAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGCAAGAACTGGAAGTGTTCAATTTATTTTGGG # Right flank : TTACAAAAGAAGAAAAAGAGAAAAATCGAGAAGAAACTGCAAAGTATTATGAAAGACTTAAAAATATGACAAAAGAAGAAAAAAAAGAGTATGAAATTCAAGAATTTATGAAGAAATATCAGTTAGAAAATTTAGATGAAAAAGATTTAATAGTGTTAAAGAGAATAGCAAGTGATTTGTTTGGAAATGGTCTTATTAAGGCAGGTATGGCTTTAAGCTTTACTGATGCAAAGGAACAAGCAAAAATAGGATACCTTAGTGCTTTAACAGAACAAAATTGGATGATAATTAGACAGTTAGCTCAGTTGAATACCAATATAGAAAAACTTATAGAAGATAAAAAAGAATAAATTGAAAATAGCAATACAGACACTTACTTAAATAGTAGGTGTTTTTTTATATGGAATTTTGAGGAAGGGAGGGAAAAATATGTCCTTAGAATTAGGAACAGCAGTAGGTTATCTAGATTTAGATGGAGGGAAGTTTTTTAAAGCTCTTGC # Questionable array : NO Score: 3.48 # Score Detail : 1:0, 2:3, 3:0, 4:0.41, 5:-1.5, 6:0.25, 7:0.01, 8:0.8, 9:0.51, # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.20] Score: 0/0.37 # Array degeneracy analysis prediction: R [14-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%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 2 95836-95213 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000011.1 Clostridioides difficile strain JV63 001 JV63_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 95835 29 100.0 37 ............................. ATGAATTTAGATTTTGAAAATTGTAAATCACATGGTA 95769 29 100.0 36 ............................. ATAATTAAAGGCGACATCATAATCACGTATATTATC 95704 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 95639 29 100.0 37 ............................. AAAGAACTTTTAAGAAGAATGTTACTTGCAGGAGAAA 95573 29 100.0 36 ............................. GTTCGTCTATGTTTTGCAATAGCAGGTTTTAGTTTC 95508 29 100.0 36 ............................. TTCGAAAGCGGTAAAACAGCATTATCACTTTCAAAA 95443 29 100.0 36 ............................. TGAAAAATGTTAAGCGTAATATCAAAAATAGCGGGA 95378 29 100.0 40 ............................. CCAGTTACGTCCTTGCTAAAATCTTTTTCAACCCAAGAAT 95309 29 100.0 39 ............................. CTCAAAGTTGGACTAACTTCATCTTTTAATTTTACAAGT 95241 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTTTTTAAGGTGTTATTTTATGATTATATAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [86.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 258910-258162 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000026.1 Clostridioides difficile strain JV63 001 JV63_contig_26, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 258909 29 100.0 37 ............................. TTTTATTTTTGAAAATAAGGTTGGTATGCTGCTCCCA 258843 29 100.0 36 ............................. TGCTTACGAATGGTTGGAATTACATCTATTGCTAAC 258778 29 100.0 38 ............................. CAATATGATTTTGCATTAGATTTTAGTGAAGGATTAGC 258711 29 100.0 35 ............................. TTTCTTTAAAACAGACATCAATTTCGTTATATCTG 258647 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 258582 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 258516 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 258450 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 258385 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 258320 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 258255 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 258190 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 98.9 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # 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 [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 1 707-1394 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000030.1 Clostridioides difficile strain JV63 001 JV63_contig_30, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 707 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 773 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 839 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 905 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 972 29 100.0 38 ............................. CAGCTTTACATATCTATCTATGATTTTTGAATCTCCAT 1039 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 1104 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 1170 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 1235 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 1301 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 1366 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.5 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : GAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTGATTGGTGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTCTATGTATCAAAAAAGTAAAAAGCCACTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAAATTTTCATTTAAGTTCAAAAAAAATAAGCATTAAATTGTTTAGAACTTCACTCTACTTCCAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAAACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTATTTTGCTCAAAATATTTTAAATCAATAGACTAAGTTCTTATTTTTAGATAGAATTATATTTGAATAAAGAATTTAATAGGGGAGAGTTCATTATGTGGGGAAAATTTAAAAAATTAAGTTTGTTGAAGAAAATTTTAGTGATATTTTTAATATACTTTGTTGTATTTACAGTATCAATGATGATTCATCAAGCGATACGAGATTCAAAAAATAGAGATGAAGTAAATGAAGGAAATATTACAAAAGAAAATATAATTAGCGAAAGAGAAAAAGAAGATATTTATAAACAAGAGATGCAAGCAAAAGTAGACTCTATGATACCAGAAGACTTAAAAGATAAAACAACATATTATGTTAACATATTAAACCCAACAAAAGGTGAGGGATATAT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-8] 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 [0.41,0.27 Confidence: LOW] # Array family : NA // Array 1 1206-1695 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000115.1 Clostridioides difficile strain JV63 001 JV63_contig_119, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1206 29 100.0 36 ............................. TTTAGATAGTAACTATATGATGTAATTTCTTTTTTT 1271 29 100.0 37 ............................. TTGTATTACCATGTTTAGCAAAGAATTGATTATACTA 1337 29 100.0 38 ............................. TTTGTTGTTTTCATATCTACTGATTGAAATATCTGAAA 1404 29 100.0 37 ............................. TCATAATTGACAGCGTCACCATCTATTAGCCCAAACA 1470 29 100.0 36 ............................. TAGATGAGGAGAACAGGAAAGCAATAGAGAAAATTA 1535 29 100.0 37 ............................. ATAAATATCTCTGCAACTTGCATATTTTATTTTTATT 1601 29 100.0 37 ............................. TCTTGATAATGTACATTTATTTTAATACTTTTCTCTT 1667 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : AGCACTGATTTTTATGTGGTTGTATTGTATGAGAGTTCTGGAATAGATTCATATTGGGTTTTTATAGATACTGATACATGGACTGTTCATGATATACAGCGTTTAAATCAAAATGAAGAATTAGTATCATATCATGATGTAAACCCAAATACAGAAGCAGATAAGCATTATAATAGAGATGTTGATGATGTTAATATTATATTTGTTCCATCAGAAAATAATCCTTTTGATAATGATGTAGATGGAATAAATTAAATATTTATTATAAGGAGTTAAACTATAAATTGATATAAATATTTAAAAATAATGTATTTATGATATAATAAAACTATGGAAATTTTGCAGTGAGCGATATTTATGATAAAATGGGGCTTAGCAGTTGAAATATAAGGCATTGAGGGTGTATGATAAGTGTTATCATTTGCACTACTGCCCGCTCACTGCAAATTTAAGAGAGTTGTATATGCGTAGGCATTGAAAATACTCAACTTATTTTGGAG # Right flank : TAATTTTTAAATAATAGAAATAGACTAGTATTTAGCTAGTCTATTTTTTCTTTTCTTCTTTTTAATTCTTCCATTATGAATACTGCTGCGACTATTAAATAGTTAACTTCTAAACCAATTGCTAGGTCAACTATTGTTGTAACAGTAACATTTTTATAATCGCCCTTTTCTAACTTGGAAATATAACTTTTGTGATAGTTAATTTTTTCTGCGAGTTCTAATTGTGTTAAATGTCTCATTTTTCTCAGTTGTCTTAACATAAATTTAAATCACCTTTTAATTTATTTTTTAGTAAATTCAGATAATTATATTATGTGCATTTTTGTGGGGAAAAGTTTCCTATTAGTCGATTTTTTTGTTGGAAATTTGTGCTAAAATATAAGTAAGAAATAACTCTAGCTAGATAGAGAAAAAATAGAAAATTGTAGATTTTGATAAGTCTTGCAATTAAATTTATGCAAATGTAAGCACTTTTTAAAAGATAGGGGATGGTTGTAATT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [66.7-81.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2824-2657 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000032.1 Clostridioides difficile strain JV63 001 JV63_contig_32, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 2823 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 2756 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 2689 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAGCAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGCCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : CAGATAAATCAATTATAAGATTATATACTATCCTTATACTCTAGTTAAATATATTTTAATCACTAATATAAATTAGTTTTTTTAACAAAACAATAAAAGAGTAAAGTACAAATAATTCCTTTGTGCTCTACTCTTTTTAACTTTCTTTAGACAATAATACAATGATAAATGTAAAAAATTATATATTCCATTCTATAGAAATATGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCAGTTCATATACAAAGTCAATTTCATTGAGAAACATTTAATATATGTTTATAAAAATTTCATACTATTCTTTCATATTTGCATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGCTTGTATATTATTTATATAATCTAATATTTTAAGAAGGTGGTGT # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : CTACAATTTGATTAGGATATTATCTTAATTTGT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.78 Confidence: HIGH] # Array family : NA // Array 1 7162-6741 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000042.1 Clostridioides difficile strain JV63 001 JV63_contig_42, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 7161 29 100.0 37 ............................. GTACTCCATTTACTACACCATTAGTCAAATCTGTACC 7095 29 100.0 36 ............................. TAAAAAATACAAAGAAGAATTGTACAACGAATTTTC 7030 29 100.0 38 ............................. AAATACTTCACCAAATAAACCCCTAGTTTCTGTATCTA 6963 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 6898 29 100.0 36 ............................. TTAGTATCTGCTACAAAGTATTCTAAAGTCCATTTG 6833 29 100.0 36 ............................. TCTTGATTAAATCCGATTTTAAATGAATTAAATGTA 6768 28 86.2 0 ..................-..A.T....T | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 98.0 37 GTTTTATAATGACTATGTAGTGTGTAAAC # Left flank : TTATACTTCTCAAACATGTTCAGAGTGTGGTCATGTAGACAAAGAAAACAGGGAAACACAGGCTAAATTTAAATGTTTAGAATGTGGATTTGAAGCTAATGCAGACTATAATGCTGCTAGAAATATAGCAAAAAGTGATAAATTTGTAAAATAAAATACAATAATATATGTACGGGTGATTTAGTGTAGATGGTAATATCTCCAAGATAAAACTTGCATCCGAAGGGTGAGGGTATAGATAAAACGCATAAGGTAGTATGCCAAATATGTGCTATAACCACTCACTAAGCCGAAAAAACCCTAGTTATAATGGCAACTAGGCACACTATTAATATATAAAATGCAGTGAGCGAACTTTTACATTTACATACTTTAAGTAGTTGAAATTACTAGGGTGTAACAATTATTTTTGAAATGTCAAAAAACACTACTGGTGGTTCACTGCAATATTTTGTAAATTACATAGACAAAATCATTGCAATTACTGTGTTATATTTGGG # Right flank : TCAATATTTTGAAAGTATTATAATAATCAAAAATAAATATTAAAACAAAACTAACACTTACTCAGGTAGGTGTTTTTTTGTTGAAAGAAGGTGATTATGATATAAAAAGTAATAAATAGGTAAAATATGTAAGAATTATATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTAAACGCCAAATTCCATAGCGGAAGGAGGTGGAACGATATGGTGATAGATTTTTTATTGAGTATACTAGCTGGTGTTATATCAGCTTTCATGTATGAGAAAATAAAAAACCACTCAAACGCCAATAAGAGTGGTTTAAAAAAATAAGTTATTTTTAATCTGATTGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTAGAAAAAATATTGCATATAATATTTTTTATAGTCAATAAAAAGATGAAATTTTTTATACAAAATAATAATGA # Questionable array : NO Score: 3.16 # Score Detail : 1:0, 2:0, 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 : GTTTTATAATGACTATGTAGTGTGTAAAC # 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: 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: F [86.7-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 2 10739-10317 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000042.1 Clostridioides difficile strain JV63 001 JV63_contig_42, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 10738 29 100.0 37 ............................. ACGGCTTTCAGTTGTTACTAACGCATTCTCAATATGC 10672 29 100.0 37 ............................. ACTACTTTTTGAGAAGGAGTTGAACTTAAACCTAACA 10606 29 100.0 37 ............................. AACAGAAGAAACAATTTTTATTCCTCCTTCAAATACA 10540 29 100.0 37 ............................. AAGGCTTTAGAGACTGTAAGAAGTATATTTGCTCAAG 10474 29 100.0 35 ............................. GCTAAAACATTACTTGATAAAAACAAAATTACAGG 10410 29 93.1 37 ..............GA............. TTATCAATCTTAGTATTAGATGTATCTTTGTATAATT 10344 28 79.3 0 G..............A....-..TC...A | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 96.1 37 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : GGAGAATTAAGGGAAATAATAGCTGAAGATTCAATACTTAATTTTCATAGCCAAGAATTTATTGATAATATAAGGAGAAAAATAAATATAAGTAAGAATAATTTAGAAAATAATAAAGAAAAACAAATAAAATCAAATGATGATGCAATACAACAAGTGAAAGGGTTAAAAGAGTTATTAGACATGGGAGCAATAACAGAGGAAGAATTTAATAAGAAGAAAAAAGAATTATTGAATTTATAACAAGAGAAAATAAATAAGTATAAACATACAAAGCACTTGAATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATATAGGTAAGGCTTTAGCAGTGTTCGATTTTTTGAAATATTGCTTGTAGTGATTGAAATTACTATATTACAGGTATGCTTTATGAAATGCCAAAAAACACTACTGGTCGCTCACTGCAAATTTAAGAAAGCTATATATATGTAAGTATTGGAAATACTAAATTTATTTTGGG # Right flank : CTAAATAAACAAAGAAAGCACTTACTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAAT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 : ATTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:83.33%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [66.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.18 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 73589-73360 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000047.1 Clostridioides difficile strain JV63 001 JV63_contig_47, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 73588 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 73523 29 100.0 40 ............................. ACAAGAGCCTATTGACCTTAAAGGATGTTTATACACTAAG 73454 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 73388 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ======================================== ================== 4 29 99.2 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : 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 [73.3-68.3]%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 1003-1493 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000050.1 Clostridioides difficile strain JV63 001 JV63_contig_51, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== ==================================== ================== 1003 31 100.0 34 ............................... TGGGAGATTCTCCAGAGTTTTCCGCATCAGTGAA 1068 31 100.0 35 ............................... AAGTGTCTATTAACATTTGCAACAGTGTCTTCTAC 1134 31 100.0 35 ............................... GTTATATTTTTGTTGCTTCCCTTCTTAACATGGTC 1200 31 100.0 36 ............................... CCATATCTATCTTTCAAAAACTCATATGCATATTTA 1267 31 100.0 35 ............................... TAATTAAAATATTTACAAATAGAATTATAAGAAAG 1333 31 100.0 34 ............................... TGATAAAACACTACATACAAACTCAACCTCGCTC 1398 31 100.0 34 ............................... TGTTATATAAATACATATTACACAAGATATGTAT 1463 31 90.3 0 ................T............CA | ========== ====== ====== ====== =============================== ==================================== ================== 8 31 98.8 35 ATTAAACCTTAACACTATGTGTATTTAAATT # Left flank : TTTTAATTTACCGTCATTATCCCATCTTTGCAGTGTAATAACTGATACATTTAATAATTCTGCAAACTCTTTAGGTTTATAATGTTTGCTCATATAATCACAAAAGGATGTGATTATATTAGACTATATTTGATTATATTTTTATCAACTAAAGAGTATCTCCTTATGTTTAATTTATTTTCTATAAAACTATATTTTCACATTATAAATATAGTAAATTTTTCTATTTTTTATAATTTTATTTTCATGACACTATATTTTAATTTATTATACTTTTCTCAATTATTTTTTATAATAATTGTATCATTTTTATTGTTTATATAAAATATTGCAAGTTGATTTATATGGTGATATAATTAAATTATCCCAAGCTAATTGATGTAGATATTGAAATATCTATATTCTTATTTTTAACTGTTAGTTGGGATAAAAAGCTTAAATTAATTGATACTACTGTATTACAAGTATTTATTGATTTTAAAAATGGCTTGTTTACATCT # Right flank : ACCACTCTTTGGACCATCTTTAAGTGTAAAAAAAGAGCTGTCTATCAGTTTAGACAGCTCTTTTTATTTAATAAAAATCCTTCAAAAATTCAAGATATATTTCTCTGTGAACGTTAATATCTTCCTCTGGATCAAATCCGCCATTTTCTGTATAAATTCTATCCATAAATTCTTCAAGATTTATATATTCCTGGCAACCTACTGTAAATAGCCACTCTCCATCCTCTTTTATGGCTATTACTTCTTGAGCACCTTTTTGTTCTTCTAAATATTTAATATCAAATTCTTCTACATATTTTCCCTTATCTTTTATATAATCAATTAAACGTTTATCCTGTTTTAGAACTTTTCTACACATTTCATCTGTTTGTTCTTTTACATACATAATTGCATATTTATCTTGTTTTAAAGCTTCTATACATATTTCTGGCACCTGTTTTTTTACATATCTTAAAGCAAATCCATCTTCTCTTACTGCGGTTAAACATATTTCTTCAGTT # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : ATTAAACCTTAACACTATGTGTATTTAAATT # 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:80.65%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.80] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [78.3-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.68,0 Confidence: HIGH] # Array family : NA // Array 2 11481-11906 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000050.1 Clostridioides difficile strain JV63 001 JV63_contig_51, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 11481 30 100.0 37 .............................. TTGTTGGCAAAATTAACTTTAAACATTCTTTCACTGA 11548 30 100.0 37 .............................. ATCGCCCCTTGCACATTCGTAGCAGTAAGCTTGCTTG 11615 30 100.0 37 .............................. TCGGGTAAATCTTTTTCTTTAGCTCAAAGAACAGTAT 11682 30 100.0 35 .............................. TGCTATCTATTAGTTTTTTAAAACTGTTCTCTCTG 11747 30 96.7 35 .................C............ CATGCTCCACCGCCTACAACATAAAGATTTTGCGT 11812 30 96.7 35 .................C............ TTTCTTTGTTGATTATAACTATTTTACTATAAAAA 11877 30 90.0 0 ................TT........A... | ========== ====== ====== ====== ============================== ===================================== ================== 7 30 97.6 36 ATTAAACCTTAACACTAAGTGTATTTGAAC # Left flank : ATAAATTCTATAATTTTTTTCAAGAATCTAAAATATATTTCTCTATAAATGTTTATTTACAACTTTAAATTAGATTCTTATAATTTAATTGCTGTAAGATATAAATTATATAACTGCTCTTTAGTTAAGTTAAGCTCACCCCATCTTACATCTTTAAGCAACACTCTTGTCGCTTTACTACTTCTATGCACATCTCATAATTTTGTTTTTTTCATTTCTTAATTCCCAGGGATTTCTTTTTATCCCATTTAAACTTATTCCATATATATCCCTCTTTTCAATATTATTTTTATAAAATTTACATCATTTTTATTGTTTATATTAAATATTGTAAATTTATTTATATAGTGATATAATCAAATTATCCCAAGTTAATTTATATAGACTTTGAAATATCTATATTCTTATTTTTAATTGTTAGTTGGGATAAAAGACTTAAATTAATTGAAATTACTATATTTCAAGTATTTATTAATTTTAGGAATGGCTTGTTTACAGCT # Right flank : CAACGCCAATAAAAGTGGTTCAAAAAAAAGCTATCTAAATTAACAGATAGCTCTTTTTAAATTATTGAAATCCTTTTAAAAATTTAAGATATATTTTCCTATAGACATTTCTACCTAATCTCAGGTCAACCCTTCACCTTCATTATAAATTCTTCTTTAGTAATACCTCTTTCAAAAATAAATAATCTAAAATCTTACATATTGAAGAGCAAATCTATTTTGATTAACTGCAATAATGCGCAAGTTATATATCTGCTCTTTAGTTAAGTTAGGCTCATTAAACTCCACGCACATCTCATAGGTTTATTTCTTTACTTGCATTAATTCCCATGGGAATTTTTTTATTTTATCTAAGCCTATTTCCTTCATCTATCTTTCCCCTCTTTAATTTTATTTTTATAACACTTTTATTATAGTATTTTTAATTATTTTTATATTAAGATATTTTATTTTCTTAGGTTTGTGGTATAATGAAAGCAAGAAGAACTACAATCTATTTC # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTAAGTGTATTTGAAC # Alternate repeat : ATTAAACCTTAACACTACGTGTATTTGAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:73.33%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 17951-16287 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000051.1 Clostridioides difficile strain JV63 001 JV63_contig_52, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 17950 29 100.0 37 ............................. AATCATGCAACAGTACGAACGTACAAACCATCAATTA 17884 29 100.0 36 ............................. TTTCTATATCTTGAAAATTTTGTTAATGATGTTGGA 17819 29 100.0 37 ............................. CCTGTTGTAATTCAAGCGGTCAGAGGAATAGAAATAA 17753 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 17687 29 100.0 37 ............................. CCTTGACACAACAGAATAAACATAATATATAAGCATA 17621 29 100.0 37 ............................. TTATTTCTTTCAAACTACTATTTTCATTTAACTTTGC 17555 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 17490 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 17424 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 17359 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 17294 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 17227 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 17160 29 100.0 36 ............................. CTGGTTATTGTCTCATCACCATTATGCTTAGGTATG 17095 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 17030 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 16965 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 16900 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 16834 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 16769 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 16703 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 16638 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 16572 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 16506 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 16440 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 16374 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [16317] 16316 29 69.0 0 AC........T.A....CAT.T.C..... | A [16301] ========== ====== ====== ====== ============================= ====================================== ================== 26 29 98.5 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 296692-298434 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000006.1 Clostridioides difficile strain JV63 001 JV63_contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 296692 29 100.0 37 ............................. TTTCAATAACTTCTCTAGTTTTATTATAAATACGAAA 296758 29 100.0 37 ............................. TATCTTTATCAGAAGTTAAAACTAAACCAGTTGCTCC 296824 29 100.0 37 ............................. TATAGAACGTAACTATTTCAGTCTCTTTACTTTGCAA 296890 29 100.0 38 ............................. ATTTTAAATAATGAAGTTGTTTTAGATTTTAGTAATTT 296957 29 100.0 36 ............................. TACCAATAAGTTACAGCAGTAAACAGACTAACTGGA 297022 29 100.0 36 ............................. ATTTGAATATGAGATTAAGCATAGGAAAGTTAATAA 297087 29 100.0 37 ............................. CGAAAAAAACTTCTAAGAAAAAAGAAAGCAGTACTAT 297153 29 100.0 38 ............................. AGAGTTCGCTCTACCTACAACATGCACAGATTGAGAGA 297220 29 100.0 37 ............................. TGTCTCAAAAACCGTCTTTTTTTGTCCTATAAAAGGC 297286 29 100.0 35 ............................. CATCATGTAAAGAATACTTTTGTCCTGTAAAATCA 297350 29 100.0 38 ............................. ATTTTTATAGCTGTTTATAATTGGTATGGTGTTAATGT 297417 29 100.0 38 ............................. TATATAGAGTTTTATAATGATATTTATTCTCTTTATCA 297484 29 100.0 38 ............................. CCGTAACCTTTTTATTGTTGTTGTTATTGTTATTATTA 297551 29 100.0 37 ............................. GAAGCAACTGCAAGAGTAACAATTACGTTAGCGAGTT 297617 29 100.0 38 ............................. GCTATTTGTTCTGCTGATATTGAAATGAATAGAACTTC 297684 29 100.0 38 ............................. TTGGAAAATTCATAAAAATAAATTTAATTGGAGATTGA 297751 29 100.0 36 ............................. AAAGCATCAGTTTTAACTGAAGTAAGTGCAGTAGTC 297816 29 100.0 37 ............................. TTTTCTTTTTGTTATCAGTCATGAGCATCAAACACAT 297882 29 100.0 37 ............................. GAATAAAAATAAATCAATAAAAACAACCTCCCAACTT 297948 29 100.0 36 ............................. GAGGTTTACAACATTGCAACTAAATATGAGCAGGCA 298013 29 100.0 37 ............................. TAAGTTCAGCTTCTGGTATCTTTTTCATACATTATAT 298079 29 100.0 38 ............................. GGTAATGCTGATGATTTGGTTGGAGTTCCTTCTTCTGA 298146 29 100.0 36 ............................. GCTACACAAAAGAGGTAGCAGGTAAAAATGACTTAG 298211 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 298277 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 298342 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 298406 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 27 29 97.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGAAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAGCAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAATAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 23063-22771 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000068.1 Clostridioides difficile strain JV63 001 JV63_contig_69, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 23062 29 100.0 37 ............................. TGTATCTCCTATCGCCATTTATGCTATTAAATACAAA 22996 29 100.0 36 ............................. CTGTTTTAAACAATTTAAGCATTGAACAAAATCAAA 22931 29 100.0 37 ............................. TTTTCAAAGCTGCTCTAAGTGCTCCATACTTTTCCTT 22865 29 100.0 37 ............................. GAATTTTTGAAATGCACTGAATACTCATTTATTACAT 22799 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 100.0 37 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTTAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGATATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGGG # Right flank : AATGATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGGGAATTTAAGATTGCAAAGGAAATGGAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTGTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTATTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGCCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTTTGTGGAAATTTGTGGTAGAATGTAGTTA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : ATTTTATATTAACTATGTGGTATGTAAAG # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [66.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 61853-63264 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000007.1 Clostridioides difficile strain JV63 001 JV63_contig_7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 61853 29 100.0 37 ............................. TGATGAACGATAAAACAATTATCAAACTCAGGAGAGA 61919 29 100.0 37 ............................. CACAAGTTACTTTAAAATTAGAAAAACCAATTTCAAA 61985 29 100.0 37 ............................. CTGGGATTATAATAATATACACTTCTTCTAAAGTAAA 62051 29 100.0 35 ............................. CTAATAGAAAAATCAACTTGATAAGAATTAACCAA 62115 29 100.0 37 ............................. TGACGAACAATAAAGCAGTTATCAAAATCAGTAGAAA 62181 29 100.0 37 ............................. ACAAGGTCAGTAACATCACCAGCAATTGGAACATCTA 62247 29 100.0 37 ............................. GTATAACTTTTTTACAATTATTACAAAACTTATCTTT 62313 29 100.0 37 ............................. ACATTTGAAGAACAAAACTTAGACTTTTATAACGCAC 62379 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 62445 29 100.0 38 ............................. CTAGTACCCTTCCACCAGCATCAATTGCATTATCAACC 62512 29 100.0 37 ............................. ATATAAGCAGGAAATAAACCAGCCTTTTTTGCTAATG 62578 29 100.0 36 ............................. CTTGCTGGATTTGAATTTAATATAGAATTTTCTCAG 62643 29 100.0 36 ............................. AGCTACTTAAACACATCAGTAATGGCAAATTATGGG 62708 29 100.0 37 ............................. CAAATTGCTGACAACACTGAAAGCATTATGAACGCTA 62774 29 100.0 36 ............................. TGAGGTATTAAGACGTTGAACATTTGCAGAGCATAA 62839 29 100.0 37 ............................. CGAAAAATACATTCAAGTCCAAAGCCATTGGCGAAAC 62905 29 100.0 36 ............................. TCTGGAATATGAGAAGTTTCTGTAGTACCATAAAGT 62970 29 96.6 39 ...............T............. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 63038 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 63104 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 63170 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 63236 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATATAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAGTTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTATAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 54556-55045 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000019.1 Clostridioides difficile strain JV63 001 JV63_contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 54556 29 100.0 38 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCCC 54623 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 54689 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 54754 29 100.0 36 ............................. GTAAATCTTTTAATGTGGCAAGTATAACAGTAGGGT 54819 29 100.0 38 ............................. AATGCAGCAGTAAAATATGTTGAAACATCAACTCCCAG 54886 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 54951 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 55017 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGCATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # 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: 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 [63.3-73.3]%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 28272-29058 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000009.1 Clostridioides difficile strain JV63 001 JV63_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== =========================================================================================== ================== 28272 30 100.0 36 .............................. CAAGCTATTATTTTCAAGCTGCATCCTGCTACTTAT 28338 30 100.0 37 .............................. TGGTAGCCGAGAATACGATTTTTACAGATATACAAAG 28405 30 100.0 36 .............................. TCAGTTTCTATTTCTGTTCCACCCTTTAGGTCAAGT 28471 30 96.7 19 .............................T GGGATAACAATATAATATA Deletion [28520] 28520 30 76.7 36 T..TC..T.........TAC.......... TAACGATTTGTATTTATTTTATTGTTACTTACATCA 28586 30 96.7 35 .................T............ GCCAATGCAGAAAGTGAACCTCTGTGCAATATAGC 28651 30 90.0 91 ...T............TT............ TCAGCTAAACCTACTATCTTTGGCTAAAATATAGAGATTAAACCTTAACAATAAAAAAGAAGCTTCTATAGAGCCTCTTGAAGCTTACAGT 28772 30 80.0 31 .A.T.....A......TT...........G GAGATGTTTTAGAATATGATACAATAACAGA 28833 30 86.7 27 .A.T............G............T TAGCAACTACACAAAGATATATAAGAA T [28835] Deletion [28891] 28891 30 90.0 42 ...............C.T...........T AGGGGTGGAGGGCCGTTTCTTGAGTTCACCAAACCGAAACAT 28963 30 96.7 36 ..C........................... AACCATTTATCTCTATATCCTGTCATTATTTTATTA 29029 30 90.0 0 ................TT...........A | ========== ====== ====== ====== ============================== =========================================================================================== ================== 12 30 92.0 39 ATTAAACCTTAACACTACGTGTATTTAAAC # Left flank : TTTTAATGACGAATTAGATATCGACATTGTTAAATTGCAGTTGGAAGCTATAAAAGAAGAAATACAAGAATCTGTTTTAAGAGGAAATTTTGACATTAAAGATTACACAAAATTTTATATAAATGAATTAAAATTTACCGAAGTTGTTAGCATAGAAATAAAGGAAGAATTTCAAAACTTTATTGATTCTTGTACAAAGCAATATATGCCAGTTATTTTTGATTAAACCTTAATACTTTGTGTATTTAAACTAACGACTTGTATCTATTTTATTGTTACTTACATCAATTAAACCTTAACACTATATTTTTATTGTTTATATAAAATATTGCAAGTTAATTTATATAATGATATAATTAATTTATCCCAAGTTAATTGATATAGACTTTGAAATATCTACATTCTTATTTTTAACTATTAGTTGGGATAAAAAACTTAAAACAATTGAAATTGCTGTCTTGTAAGCATCTCTTAATTTTGGGAATGGCTTATTTACAGCT # Right flank : AGTTAGGATAATATTATGTTTTATATAAATACTATAATATATATAGTATTTATTAGTTATATTAGATTTCTGTACATAACTCTTAGTGGAGAAGACTTCTGGAATTTTGCCATTTTGGTATATGTACTTTATAAAACTGTAAAACACTGCTTAAGATAGCAGTGTTTTTTTATTTCAACAATATAATTTATAATATTTTATAATAATTATATTTTTATTGTTTATATAAAATATTGTAATTTAATTTATATAATGTTATAATTAATTTATCCCAAGTTAATTGATGTATTATTTGGAACATCTGCATTCTTATTTTTAGCTATTAGTTGGGATAAAAAACTTAAAACAATTAAAATTGCTGTATTGTAAGCATCTCTTAATTTTGGGAATGGCTTATTTACAGCTATTAAACCTTAACACTACGTGTATTTAAACTTTGTGTCGTCCCACATGGAGCCCCTAACCTCGAACATTAAACCTTAACACTACGTGTATTTAAA # Questionable array : NO Score: 5.64 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:-0.17, 8:1, 9:0.85, # 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 : ATTAAACCTTAACACTACGTGTATTTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:73.33%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 29463-29822 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000009.1 Clostridioides difficile strain JV63 001 JV63_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 29463 29 100.0 37 ............................. CTTTGTGTCGTCCCACATGGAGCCCCTAACCTCGAAC 29529 29 100.0 37 ............................. GTTATGTCTTTGTTACTTCCTTTCTTAACATGGTCTA 29595 29 93.1 36 ................TT........... CACTGGCGCATTTACAGCAATTGTAGCTTCTGCACG 29660 29 93.1 38 ...T.............T........... CTTACTTTCATTAACCAGAATTATTGGTTTATCTTTAG 29727 29 93.1 38 ................TT........... TAAGGGCGGGAAAGCCGTTTTCAAATTCACCAAACCAT 29794 29 86.2 0 ..C..............T.....A.A... | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 94.3 37 ATTAAACCTTAACACTACGTGTATTTAAA # Left flank : ATCAAACCTTAACACTACGTGTATTTAAACAACCATTTATCTCTATATCCTGTCATTATTTTATTAATTAAACCTTAACACTTTGTGTATTTAAAAGTTAGGATAATATTATGTTTTATATAAATACTATAATATATATAGTATTTATTAGTTATATTAGATTTCTGTACATAACTCTTAGTGGAGAAGACTTCTGGAATTTTGCCATTTTGGTATATGTACTTTATAAAACTGTAAAACACTGCTTAAGATAGCAGTGTTTTTTTATTTCAACAATATAATTTATAATATTTTATAATAATTATATTTTTATTGTTTATATAAAATATTGTAATTTAATTTATATAATGTTATAATTAATTTATCCCAAGTTAATTGATGTATTATTTGGAACATCTGCATTCTTATTTTTAGCTATTAGTTGGGATAAAAAACTTAAAACAATTAAAATTGCTGTATTGTAAGCATCTCTTAATTTTGGGAATGGCTTATTTACAGCT # Right flank : AAAGAAGCTTCTCTAATCTCTATAGAAGCTTCTTTTTTATTTTCTTTTTATTGCACTATATGGTCGTTGGTGTCGTCCCACATACTTCCCTTAACCTCAAATTCCAAATTCTTTTCATCACACAGCTTATCTTTAGATTTAGTGCTTCCAACCCCTGTAAGTTCTGGAGTCCACACATCTAAGCTATAGAATCCGTCTTTTGTATTAGTCCCAGTGTAAATTTTAATAGGTTCTTCCACTCCATTTTTAGATTTTTTCTGCATTTTATATCTTAATACTGTCTTATCTGCATTTGTACTTACAACTGTTACATCAAAAACTTTTTGGCTTCCATAAATTCCTGTTGCAGATAAAGTCTTCCCATCTGCTGTTTTTACATATATATCTTTATAAATGTTTGGAGGCATGTTTTGGTTAGTTACACTCAAACCTTTACTTGTACTTGTATTTCTTGTATCCCAAGCCTTTGGTTGTGCTGTTAGTGCGTTAGTATTATATTC # Questionable array : NO Score: 5.66 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.01, 8:1, 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 : ATTAAACCTTAACACTACGTGTATTTAAA # Alternate repeat : ATTAAACCTTAACACTTTGTGTATTTAAA # 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: NA # Secondary Structural analysis prediction: F [-1.60,-1.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0 Confidence: HIGH] # Array family : NA // Array 3 37857-38017 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000009.1 Clostridioides difficile strain JV63 001 JV63_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 37857 30 100.0 35 .............................. AACTTTACAGTTGGATGGCAAGAAAGTGGAAATAA 37922 30 100.0 36 .............................. TCTGTAAAAGAGTGTTTTAAACTACTCTTGCCAAGT 37988 30 86.7 0 .......................AAA...G | ========== ====== ====== ====== ============================== ==================================== ================== 3 30 95.6 36 ATTAAACCTTAACACTATGTGTATTTAAAC # Left flank : TATTTCTGGAGTTTGCTCTTTTACAAATTGTAGAGCCAACCCATTTTGTTTTACTGCAATAAGGGATAAATTGTAAAGCTGTTCTTTAGTTAAATTAAGTTCATCGAATTTAACATGTCCAAGTAACATTCCATCTCTTTTTAATGCTTCTATACACATCTCGTAAGTTTGTGTTTTTGCAAATCTCAAATCCCATGGCCATCTTTTTATACAATCTAAATCTATTCCCCTCACTTAGTCATCTCCTTTTCAACATTATTTTTATAACACTATATTTTATACAATATATTAAATTACGTTATTATTTATAATAATCATATCATTTTTATTGATTATATAAAATATTGTAAGTTGATTTATATAGTGGTATAATTAATTTATCTCAAGTTAATTGACATAGTATCTATTTTCTTATTGTTAGTTGAAATAAAAAACTTAGATTAATTGAAGTTACTGTATTATAAGCATTTCTTAATTTTAGAAATGGCTTATTTACAGCT # Right flank : GAAGTTACCTATAACTTAGATAACTTCTTTTTATTTATATTATTTATTATAAATATCTACGTAGACTCCCATACTTCCATTTTTAATTTCTACTTTTTTCCCGTCCATTTCTAAAGTTTGGTCTTCGAATTTTCCTTTTACAATATTAAAAAGTTGTTCCCCTTTTGTTGGTAGGAGTAGTTTAAAACACTCCTTCACAGAACTATCAAACTCTGGGGAATTTGAAAATAAACCAAATCCAACTACATTATCTTCTGCATTTACTATACCCATTTCATTGAATCCATTCCCTTGATTTGATTTCTGCTTATATACATATGTTGTGCTTCCATCTTTTGTCCAGCCAAGTTCAGGCAACTTCTCTCTAAACTCTGCATTTGTAATAGTTCCAGGAGTCTCTTCTCCCTTTAATATATTTAAAATTTCTCTAAAAACATTTTCATTTCCGCCATTGCCGACTTGTGTAACTTTACTAAATTCATGTTTTTTTATAAAATTTT # Questionable array : NO Score: 5.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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 : ATTAAACCTTAACACTATGTGTATTTAAAC # 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: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 4 39882-40175 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000009.1 Clostridioides difficile strain JV63 001 JV63_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ =================================== ================== 39882 32 100.0 32 ................................ GAACATCCAAAGCCTGTTGCTGTGCCACTTGG 39946 32 100.0 35 ................................ CGTCCATCCAAGTTCTGGTAGCTTATTTCTAAATT 40013 32 96.9 34 ..............................C. AAACAAACAAATTAGATAGTCCGATTAAACTTTT 40079 32 100.0 34 ................................ TTGCCAGCTTTCTCCTTTATCTACTCCATAAAGA 40145 31 84.4 0 .................C.....-AA...G.. | ========== ====== ====== ====== ================================ =================================== ================== 5 32 96.3 34 ATTAAACCTTAACACTATGTGTATTTAAACAA # Left flank : TATTTTTTTCATTTTATTTCCCTCCATATCTCCTCTATTTATATTAAACATTATATAATACATGCTATAAAAAATATGTAAAATATTGTCACTTAATTATAAATAAGGGAGTCTATCTATTTATATAAGTTTTTTATAAAAAAAACTAATCTATTTTCTTATTTTAATAATAATTTTTTTACCAATACATTATATACAAAACAATTTATCTTATAACCTCTCTTTACCAAAAGTTGCCTTTTTATATAATACTAACTTTAATTATATAATATGTATTTTTTTCTAAATTGTCAATATTTTTAATAAATTTTATTGATTATATAAAATATTGCAAGTTGATTTTTTTAGTGATATAATTAAATTATCCCAAGCTAATTGATGTAGATATTGAAATATCTATATTCTTATTTTTAACTGTTAGTTGGGATACAAAAATTAGATTAACTGAAATTGCTGTGTTACAAGCATTTATTGATTTTAGGAATGGCTTGTTTACAGCT # Right flank : AGTTACCTATAACTTAGGTAACTTCTTTTTATTTATATTATTTATTATAAATGTCTACATAGACTCCTATGCTTCCATTTTTGATTTCTACTTTCTTGCCATCCATTTCTAATGTTTGATCTTCGAATTTATCCTTTACAATATTAAAAAGTTCTTCTCCTTTTGTTGGTAGAAGTAGTTTAAAGCACTCCTTCACAGAACTATCAAACTCTGTGGAATTTGAAAATAAACCAAATCCAACTACATTATCTTCTGCATTTACTATACCCATTTCATTGAATCCATTCCCTTGATTTGATTTCTGCTTATATACATATGTTGTGCTTCCATCTTTTGTCCAACCTAAGTCTTCCAGTTTATTTCTAAACACCTCATTACTAACACTCAAATCAGCATCATTCTTATCTTCTTTTTTATCCTGGTCCTTAACATTTATAGCATTAATTTTAATTCCATTATTATCTTCTTTAAATCCTAAATAATTAACTAATATTTCTTTT # Questionable array : NO Score: 5.87 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 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 : ATTAAACCTTAACACTATGTGTATTTAAACAA # 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:78.12%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.80] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [68.3-81.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 5 41317-41619 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIVK010000009.1 Clostridioides difficile strain JV63 001 JV63_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== =========================================== ================== 41317 31 100.0 43 ............................... AATATGTATATATGCATAACCTAATAACCTAATATTTAAACTA 41391 31 100.0 35 ............................... GAAGTTTAGTTTTTAGTTCTTCATATTTTAAAAAG 41457 31 100.0 35 ............................... CTTTAATATAGAAGCTGTAATAGGAAAAACAGCCC 41523 31 96.8 36 C.............................. TATTCTTTCATACTCAAATTTAAAGGAAGGTTTATT 41590 30 87.1 0 G.......................-A....G | ========== ====== ====== ====== =============================== =========================================== ================== 5 31 96.8 38 TATTAAACCTTAACACTATGTGTATTTAAAC # Left flank : CATAAAATGTAAATAAATTATCGTTTAAATTTAATGAATACCCTGAACCATATTTTTCACTTTCTACTTTAGTACCTTTTTGGCCCAATTTATCTGCCAAATCGAAAATTTTAATTTCTTTATCAGCTGTAGTTTTTAAAGTTATTTCTTCTGCATTTATTGTTAAGCATTGACCTAATACACAACCCATAATTAGACCAGCTATAGTTATTTTTTTTATATTTTTATTCAATTTAAAACACCTCATTTTTATCTATTTAATATCATTGTATGTATTTTTTTATAAATTGTCAATAAATTTTGATATTTTTGTTGTTTATATTAAATATTGTAAATTTATTTATATAGTGATATAATTAATTTATCCCAAGTTAATTATTACAGTATTTGAAATATCTACATTCTTATCTTTAATTATTAGCTGGTATAAAAAACTTAGATTAACTGAAATTGCTGTATTTCAAGTATTTCTTAATTTTGAGAGGTGGCTTGTTTACAGC # Right flank : GAAGAGCTATCTAAATTAATAGATAGCTCTTTTTTTTATATTTAAAACTCTTTTAAGAAATTAAGATATCTTCCCCTATGAACATTAACACCTTTCTCTAAATCAAATCCTCCATTTTCATTATAGATTCTATTTATAAACTTTTCTTTAGTGATGTTTTCTTGGCAACCTATAGTAAATAGCCATTCTCCATCCTCTTTTATGGCTAATACTTCTCTGGCTTTTCCTTGCTTTTCTAAATATTTAACACCAAACTCTTCTAAATACTTTTCTTTGTCTTTAATATATCTAATTGCATATACATTCTGTTTTAGAGCTTTTCTACATATTTCATCTGTCTGATTCTTTAAGAATTTGCCTTCTAATTCGCTCCACTTTACATACTCAAGTGCTAAGCCATCCTCTTTTACTGCTTCAAGACAAATCTTTTTGGTTTGTTTCTTTACATATTCTAAAGCTAAACCATTTTCTTTTACTGCCTCAAGACATGTCTTTTCTGT # Questionable array : NO Score: 5.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : TATTAAACCTTAACACTATGTGTATTTAAAC # 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:77.42%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [68.3-81.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA //