Array 1 118246-118601 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000013.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 118246 29 100.0 37 ............................. AAGCCGTCTCTAAATCCATCTATAACGTTACCAGCAA 118312 29 100.0 36 ............................. ATTGCTAAGACCGCCGAAAATCTCTACAGCTTTATC 118377 29 100.0 37 ............................. GCATATGTATATATCATTGAAATAAGTTTTAAATGTC 118443 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 118508 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 118574 28 72.4 0 A.....C.........AAT....-AG... | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 94.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : TAAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTATATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTTATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTA # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 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:80.00%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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-75.0]%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 59724-60478 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000011.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 59724 29 100.0 38 ............................. GATAAGGCATCTGAATATTAATAACACCAGAGTCGCCA 59791 29 100.0 37 ............................. CTTTATTTAGAAATAAGTAAAAGGCTTAACGACTAGA 59857 29 100.0 38 ............................. AAGACATGTTGCATATGTACAAAAGAAGTTGAGTATGA 59924 29 100.0 36 ............................. TTTTAATTTTTTTTCTTTTAAATCTGCAAAAACTGC 59989 29 100.0 36 ............................. CTGGGTGTTTCTGTTTTTTCAAGAGCAGTTGACTTA 60054 29 100.0 37 ............................. ATTATTACTTAACATAATCCTTGCAATTCTAAGAATT 60120 29 100.0 38 ............................. GCAACAAAAAAGAGCAGTACAAAGAAGAGTACGACAAC 60187 29 100.0 37 ............................. AAAAGTGTTGAAATTGATGGGAAAGAGTATAAAATTA 60253 29 100.0 37 ............................. CCGCTATAGGCTTCTTCACAATAAAGACTTTCACAAT 60319 29 96.6 37 ..................A.......... AGTCAAAACTCAACACTTCAACATTAGGATTATTATA 60385 29 96.6 36 ............................A AACAAAAAAGATACATCTGTAACTAATTTTTATACT 60450 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 99.1 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAATGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAAAATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # 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 : 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: 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 [0-3] 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 18299-18985 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000015.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 18299 29 100.0 38 ............................. GACCTTTCTGTTTATTTTAGAAATCGTTCTGATAGTGT 18366 29 100.0 37 ............................. GTAATGTTAAATGGTATGTTGGCAGGATTTGAACAAT 18432 29 100.0 35 ............................. TACAAAAAAATTGAAAAAGACCTCTAAGGGTGCTA 18496 29 100.0 37 ............................. AAGTCAACATAAATTTCTAATTCATTAAATACTCTAA 18562 29 100.0 36 ............................. ATTACAGGTCATATGGGGTTTTGTATAAAGGCTGAA 18627 29 100.0 37 ............................. AAATTTCTTAGTATTTTTTCATCTATAAATTTTAACG 18693 29 100.0 37 ............................. CCTAACGCTATGCAATTTTTGAAATCCTCTATATTGT 18759 29 100.0 37 ............................. TCTGTCTTAATTAATCCCATTGCTTCAATTTTAGCAA 18825 29 100.0 37 ............................. GCTTTTATAAGTAATCTTGCTATTTCTAATCTATCTG 18891 29 100.0 37 ............................. GTTTTTGTCCCAGTATTAAATTTATTTAATACTAATA 18957 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : TAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGTGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTCTTGTTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAAGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAAGGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTGTCAGTGTTTTATTATAAATAGCTTATATAATTACACATTTTTTCTGATTAAATAATGTGATGCTATTTTTATAATAGATACTAATGTTAATGATGTTATTGCAGTATCCAATCTTATTATTTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTTATACTTTAACTCTAATTTATCTAAGGCTTTTTTATTACAATAATTAACTTTATGTTTAATTAAATACCTTATTGTAGCACCTATTACAACTTCCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTAT # 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [71.7-81.7]%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 46010-46302 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000016.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 46010 29 86.2 36 .AG..........A..............G ATTACTAGATGTAACTATCTCAACTTTGTTTAAATC 46075 29 96.6 37 ............................G TTAAAGACACTATATCCAACAGCTCCCAAGACATACA 46141 29 100.0 38 ............................. TATCATAACATTTTGTATTGCTGCTACTGCTGCAAATA 46208 29 100.0 38 ............................. TTATTAATTACTAGTATTGTATTATGAGGACTATATAA 46275 28 89.7 0 ....................-..T....A | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 94.5 38 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TTATTAAAAAGATTGATTTAGAAGATAGTGAAGTAAAAGGAGTTTGGGAAACTAATGGAAGTTGGACTGGTACTGTAAATAAATATACAAAGAATGTAATAGATAAGGTTAGAAATTGGATAGAGGAAAATAATAGACCTACTAAGATTGCAGGTGAGAAGAAGAATTTTCATGTAGTGTATAAGATTGAGTAAATTCTATTGTATTAAATAATTTATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAGTATTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTGAGAGGTATTCTTAGAGAGCAACAAGAGAAGAACAATAAATAAATAGACAAATAAAGCACTTGGATATTACATAGTTTCAAGTGCTTTGTTTGTAAAAAAATGGTATAATGTAGGTAA # Right flank : ATTAAAAATACTAAAAACACTTACTTGAATAGTAGGTGTTTTTTTTAATTGAAAGGATGTGATAATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGGGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCACTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGGGATTTAAAATTAACTGTTAATAGTATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCGTACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCGTTTACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTG # Questionable array : NO Score: 5.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 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 : 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 3540-4426 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000017.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3540 29 100.0 38 ............................. CTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAG 3607 29 100.0 37 ............................. ACATCAAGACTAGGATTTTCAACTTTAGGAACTGTAA 3673 29 100.0 36 ............................. TGTTTACGGTGCTGAGTAAAAAATTCTATCCAACTA 3738 29 100.0 37 ............................. TAAGGTTTTAATTTATTAGTAATAAATATAAGACCTA 3804 29 100.0 36 ............................. AATTCTTTGACTGCATCATTTAAATAATCTAGCTGA 3869 29 100.0 37 ............................. GTCAAAGACAAACGTATGGTCTTAAATATACAAGAAT 3935 29 100.0 37 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCG 4001 29 100.0 37 ............................. CATATAATGAATTACATAACATCTTATGATATTCATC 4067 29 100.0 37 ............................. TTCATAGTCTTTAGAGTCTGTAAATACTTTACTCATA 4133 29 100.0 37 ............................. ATGCATTTAAATGATATGTTTGGAGAACTTTGCTATG 4199 29 100.0 38 ............................. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 4266 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 4332 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 4398 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 98.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGCA # 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 5850-5559 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000023.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5849 29 100.0 37 ............................. GTAGCCACAAAGGAATGCCCCGAACCAGTTCCCCCAA 5783 29 100.0 37 ............................. GTATTAATTCGAACTGGCTATTTATCATTTCTTGCGT 5717 29 100.0 36 ............................. ATAAGAAAAAGCAATATCGTAATCACGTATGTTATC 5652 29 96.6 36 .......................G..... GATTTTAAAAATCAACTTTTTAGAATTTATTATATA 5587 29 93.1 0 .......................G....A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 97.9 37 GTTTTATATCAACTATGTGGTATATAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTGTGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTATGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCTAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGTTTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATGCCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTTTTATATCAACTATGTGGTATATAAAG # 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 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 15433-13502 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000024.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 15432 29 100.0 37 ............................. ACACTTTATATACAATTTCTAGACTATTTTGCAATTC 15366 29 100.0 36 ............................. CGTTATTCGTTTTTACTTTTTTATTTATGAAGCTTG 15301 29 100.0 37 ............................. TTTTCTATCCCTGCTGTATCTAATAAGGTCTTAAGTA 15235 29 100.0 38 ............................. TTTTAATCCTCCTTTCTAGGAAGTAATATATTGATATT 15168 29 100.0 36 ............................. TCACAAATTTCTTGATTGTTTCTAGCCCATTCTCCA 15103 29 100.0 37 ............................. TTTTTAGCTTCTGTAGTCTTTCAATATTCTTAGCTTT 15037 29 100.0 38 ............................. TATTTCCAAGTTCCTCATAAAGTTTGCTATTTTTGTTT 14970 29 100.0 38 ............................. AAAACTCCCAGAAGTAAACGTATTGTTCCTATACCAAG 14903 29 100.0 36 ............................. TCATAAGAAATGGTAAAACTATAAAAAGAGGAACAA 14838 29 100.0 37 ............................. CATTTTTCTAATTTCCAATCACGGTATTCTTCTACTA 14772 29 100.0 37 ............................. TTTTTAAAGTTTCTTCTGATATTGCATACCCTAGCTC 14706 29 100.0 37 ............................. TATTAAGGGGTACTTTTAAGCTAGTATTTCTATGCTT 14640 29 100.0 37 ............................. TGTTGTGGCAAAACTAGTTATGTAAAAGAGGTAGCAG 14574 29 100.0 37 ............................. ACTTCAAATCAAAATTAGAAAATGGAGAAGTAGGAAA 14508 29 100.0 37 ............................. TTATTTGTTTGTTTTGTAAAGTTATTTTTGAAAAAAG 14442 29 100.0 37 ............................. TCTTTAATAATAAATGTTAATCCAATTGTATGCTATC 14376 29 100.0 38 ............................. ATCTATATAAATTAATAAAGCACCAACAATTATTCCAA 14309 29 100.0 37 ............................. ATATTTCTATGCTTTTTGTATTGTGTGGAGATGGAAG 14243 29 100.0 36 ............................. TATTTTTTCTTCATTTTTAGCATATTCTTGTTCTAA 14178 29 100.0 35 ............................. TCTACCCAGTTCCCCGCTATGTCGTCCCATTCTTG 14114 29 100.0 36 ............................. CCTAATTTTTTACTTAGACTCTGCTGTTATTTCAAG 14049 29 100.0 36 ............................. TTTCTTTGACTCTAACAGTATCATATAATTTAGGTC 13984 29 100.0 37 ............................. TTTTCCTCTTCTCGCATATGGTCATTTATTACATTGG 13918 29 100.0 37 ............................. CGGATTTTAACTGGTTTTATGCAACAATATAACGCTA 13852 29 100.0 37 ............................. TAGACTATTTTACAAACAAACTTAACGAGTACAATGG 13786 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 13720 29 100.0 36 ............................. TCGTATATAACTTGGCCAGCATTTTTTTCCATCCAT 13655 29 100.0 37 ............................. GCTAATATGTTAAGTAAAAAATTATCCATACATATTC 13589 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [13532] 13531 29 69.0 0 AC........T.A....CAT.T.C..... | A [13516] ========== ====== ====== ====== ============================= ====================================== ================== 30 29 98.7 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATAATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATACTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # 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 151535-151309 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000027.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 151534 29 100.0 37 ............................. TAACATTCATTAGATATAATTAGAGCAGTTTAACTGC 151468 29 100.0 37 ............................. AATGAATCTTAATAAAATATAACTATGTATTTTCATT 151402 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 151337 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACCCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: NA [73.3-68.3]%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 85437-85661 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000005.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 85437 29 100.0 37 ............................. ACTTTTGATTCTAATGTATTAGACATTTTAGCATATG 85503 29 100.0 36 ............................. TGTGCTGTCATGTTAGCAAGTGATGCTCCTACCTGT 85568 29 93.1 37 A..............T............. ATTCCAGTTGCAATTCCCACTCCTGCTATTTTAGCTG 85634 28 79.3 0 A..............T....-..TC...A | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 93.1 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TTGGTATAGCAATTTTGTAGCTTTTAAAGGAAAAATTAAATAAATATAAAAAGCACTTGGATATTATGTTATTTCAAGTGCTTTATTTGGTATAAGATAGTATAATGGAGATAAAGGATTATATTAACTAAGTGGAATTTAAATGTTTCAGCCGCATTTTTAAGAGGTTCTTTTAGTTTAATGATTTTATATTAACTATGTGGATTCAAAGCTAAATAGAAAAAAAGAAGCACTTACTTCTTAGTATAATCACTTTATAGTAGGTGCTTTTATTTTACTCAAATTATTCTATTATTATTTGAAAGAATCATTTTTGTGATATAATAAAAATATAGAAGTTTTGCAGTGAGCGATATTTGCGACAAAATATGACTTAACAGTTGAAGTGTAAGGCATTGAGAGTGTGTGATAAGTGTTATTATCTGCACTACTCATGATTCACTGCAAATTCAAGATAGTTGTATGTATGTAAGTATTAAAAATGCTAAGTTTATTTTGGG # Right flank : ACTAAATAAACAAAGAAAGCACTTACTTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCAAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTACACCAGAAGTTACCTTCTATGAAATATTTTATCATAGTAAGGTACTTCTTACAATAAAATTTCAAGGAGGATTTTACTATGAATGAATTAATGAATTTTGAAGGAAAAGAGATTGAAATATTTGAATATA # Questionable array : NO Score: 5.51 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 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 : 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-68.3]%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 9541-9248 **** Predicted by CRISPRDetect 2.4 *** >NZ_FJQG01000033.1 Clostridioides difficile strain CD105KSE2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 9540 29 100.0 37 ............................. AAATATACTAACAATAATTTTTATTTTTTTCTTTTAA 9474 29 100.0 37 ............................. TCACATCAACAAATTCAGTTGTGTCATTTGCAGTCAT 9408 29 100.0 37 ............................. GTTTTTGATAACTTAAAATCTAGTTTTGCAGAGTTAG 9342 29 96.6 38 ...............A............. CCCATAGAACCAACATATTTAAATGTTTCACCCATTAG 9275 28 82.8 0 ....................A.AA-...T | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.9 38 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : CTGCAAAAAACATTTTCAACAGGAAGAGATGTAGCTTCAAAATGTTGGCAAGAGTTAGGAGATTTAAAAGATAAATATAGCACTGAATCAACTGAATATAAAGCTATACAAAACTTGCAATTAGCATTTTTTGTGGTAAAAGATGCATGCAAAAATGGAATAAAATATTTAGATAAAAATGAGTATAAATATTATGAGAAATATGAGAAAAACTGTGGTGAGGCTGGTGCGTGGTATAGTGATTTCGTGGCGTTAAAAGGAAATCTCAACTAATATGTTAAGATAAAAAGAATTATACTTAAGAAGCTTTATTTTATGATATAATAAAAATATGTAAGGTTTGCAGTGAGCGATATTTGTAACAAAGTAGGAATTAGCAGTTGCAATGTAAGGTGTTGAGGTTGTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAAGTATTGAAGATACTCAATTTATTTTGGG # Right flank : AAATAAAAAAAGAAAGCACTTACTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTTGGTCGGTTGGGTAAAATAATTAGAAAAAATTAGTAAAAACCTATTGACTGTAACTCGTTACAATGTTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTCTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAAGAAAAGAATCTAACTAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCTTATGACGTATACTATCGTATATCAATTATAGTATACGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGATT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-71.7]%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], //