Array 1 25501-26120 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000022.1 Clostridioides difficile strain LC1-13-1216 NODE_22_length_54056_cov_12.5091, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 25501 29 100.0 36 ............................. ATTTTGCACAAACGGCAATTATGAGCGAAGAAATAA 25566 29 100.0 37 ............................. ACAGGTTGTAGATGCTCTAACACAAGGAAATCCAGCT 25632 29 100.0 37 ............................. CTTTATTTAGAAATAAGTAAAAGGCTTAACGACTAGA 25698 29 100.0 38 ............................. AAGACATGTTGCATATGTACAAAAGAAGTTGAGTATGA 25765 29 100.0 36 ............................. TTTTAATTTTTTTTCTTTTAAATCTGCAAAAACTGC 25830 29 100.0 36 ............................. CTGGGTGTTTCTGTTTTTTCAAGAGCAGTTGACTTA 25895 29 100.0 37 ............................. ATTATTACTTAACATAATCCTTGCAATTCTAAGAATT 25961 29 100.0 37 ............................. CCGCTATAGGCTTCTTCACAATAAAGACTTTCACAAT 26027 29 96.6 36 ............................A AACAAAAAAGATACATCTGTAACTAATTTTTATACT 26092 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 99.3 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAATGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAAAATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-2] 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 45749-46107 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000026.1 Clostridioides difficile strain LC1-13-1216 NODE_26_length_50125_cov_13.9009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 45749 29 100.0 36 ............................. ATCTAACATACTTTCTTTAGAAACGAAGTATAAAAA 45814 29 100.0 37 ............................. CTTAGACTATACCATTTCCCTTGCCATTTTTTATGAT 45880 29 100.0 37 ............................. TTCTTCTATAAGCTTCTTTTGTATCGTAAACATATCT 45946 29 100.0 37 ............................. GCGTTAACCGTTTTAACTCCAAGCGTTTTAGATATAA 46012 29 100.0 38 ............................. TTGTTTAGGTCAAGTCTAATTTGACGTATTAAAGTATA 46079 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGACAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGACAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGATTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGCAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAA # 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: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 6378-5957 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000040.1 Clostridioides difficile strain LC1-13-1216 NODE_40_length_36513_cov_11.103, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 6377 29 100.0 37 ............................. AAGTTCATCAATATAACTACAGAAGGTTTTGTAAATG 6311 29 100.0 35 ............................. ATTAAAATCAATAATCAGCACAACAGGCGTATAGA 6247 29 100.0 37 ............................. ATTGATATACCCCAACAAATTACACCTTGTAATACTG 6181 29 100.0 36 ............................. ATAGTTTTAGTTTCAAGAAGCTCAAATTCTATGCTC 6116 29 100.0 37 ............................. GATAATTCCTCTGATGATATTTTAGAAACAAATTCTT 6050 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 5984 28 72.4 0 A.....C.........AAT....AG..-. | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 95.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATACCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTATTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 19206-21005 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000051.1 Clostridioides difficile strain LC1-13-1216 NODE_51_length_28219_cov_12.5616, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 19206 29 100.0 36 ............................. TACGATTTGTGGGAAAAACAAGGCTTGTTGAGGGTA 19271 29 100.0 37 ............................. TTTTTCTTTTTTGAAATATATCTTATTCTTTAGGCAC 19337 29 100.0 37 ............................. GCAATCATTCCGACTAAGTACAATATTATAAAATTAG 19403 29 100.0 37 ............................. AATTGTATAGTAGATATTTTAAAAAATGGTAGTAAAG 19469 29 100.0 37 ............................. AGCCAAACCACGAAGGTATTAACTACTTCTCGAACAG 19535 29 100.0 36 ............................. GCAAGAGGTAAATCAAAACTAGGACTCTTAGAAGGA 19600 29 100.0 37 ............................. CTAGCAACAGCAAGAGTTGCAACAACATTAATAACTT 19666 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 19733 29 100.0 38 ............................. TAATTAGTGGTGTTATAACTTCAATTTTTTTGTTTTGC 19800 29 100.0 37 ............................. TTAATATAATAAACTCTTTAGGAAAAAATTCAGTCAG 19866 29 100.0 36 ............................. CGCCATTACTATCTTCACAATGACACCCTTCGGTTG 19931 29 100.0 37 ............................. TTAGTCATTCCTGTATCTATAGCCTCTTTAAACTCAG 19997 29 100.0 36 ............................. GATTTTTCTGCTTCGACTGGTGTTATTGAGACTTTT 20062 29 100.0 37 ............................. TGTTTTAAATCCTGTTTATTAAGCTATTAAACATATT 20128 29 100.0 36 ............................. AAAGCATCAGTTTTAACTGAAGTAAGTGCAGTAGTC 20193 29 100.0 38 ............................. CACAACAAAAGTATTTACAATTTCAGAAACAGGTAAAA 20260 29 100.0 36 ............................. CCATAATAGCGATTCCATACGGAGCGACAGTGCTTA 20325 29 100.0 36 ............................. CTTGCCGTATAGATTGGTGTAGGTATATATATACTT 20390 29 100.0 37 ............................. CATTTACTTCATAATTTATGATTATAATATCATATTT 20456 29 100.0 36 ............................. AAGTGAAGTTAAAGAATGCTTGAAAAGTGGTACATT 20521 29 100.0 37 ............................. ATCAATTATTTATGTTATAATAATATTTGTATATAAA 20587 29 100.0 34 ............................. AAAACACCAGAAAAAATAATTATTACTGTTTCAT 20650 29 100.0 37 ............................. ACGATTCGCTAAAGATTTTTTAAAGCGAATGGATAAT 20716 29 100.0 37 ............................. TGACTTTCATACGCTTTTTTATCAGCTTCTGACATAA 20782 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 20848 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 20913 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 20977 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 28 29 97.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAGCAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAGTATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 5665-5439 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000060.1 Clostridioides difficile strain LC1-13-1216 NODE_60_length_25593_cov_8.29848, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5664 29 100.0 37 ............................. AATTTAGATATACTTTCACATATTTTAGTTGCTACTT 5598 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 5533 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 5467 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 99.2 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTACAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGGGCAAACACATCATCTCTAC # 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 4174-2705 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000064.1 Clostridioides difficile strain LC1-13-1216 NODE_64_length_24322_cov_9.07741, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 4173 29 100.0 37 ............................. TCAAAATCATTTAGTATTGGTGTATCGCTATTCTTAT 4107 29 100.0 36 ............................. GAAATAATAAATAGCATTGTCGAATGGTTTGCAAGC 4042 29 100.0 36 ............................. AGATATGTCAGTTTTAAATCAAAATGATATTCAACC 3977 29 100.0 37 ............................. CTGGTATAGTTGTATTTGGTGCTAGTTTTGGAGTTGT 3911 29 100.0 38 ............................. TGTGCCTTATTTCTTCTCTCTGAATATATACATCATCA 3844 29 100.0 37 ............................. ATATTGCAGATATTGGACTTGGCATGCTAGAACCTTT 3778 29 100.0 37 ............................. CGTTCTTGTTCATTTTGCATTGTTTCTAAAAAAGAAG 3712 29 100.0 36 ............................. CCTTTTATAACTTCATTAGCATTTATATTCCATTCG 3647 29 100.0 37 ............................. GTACATCAGAAAATCTATTACCTAAGAGATATATTTT 3581 29 100.0 38 ............................. TTTTTTATCGTGGTAATAAATTATCTCTATTTAAAATA 3514 29 100.0 36 ............................. CGCCTTTAGCATTTGCTTGTTGCTCTTTTTCTATTT 3449 29 100.0 36 ............................. GAAAAAAGCGATATCTTAGGGTTTGACGAACTAGCT 3384 29 100.0 37 ............................. CCAATCATATAAAAATAGTAGGTTATTTTTTTTAATC 3318 29 100.0 37 ............................. TGACCTAACCTAACAATGTATTGATTTCCTCCACCTA 3252 29 100.0 37 ............................. TTCCAAAATAAAGCTTTAGCATTCTTTGGTTTTATGA 3186 29 100.0 37 ............................. TTGAATCACTAGTTTTTAAAAATTCTTTGTCTAAAGT 3120 29 100.0 36 ............................. AATTTATATTTAAAATTATACACTAGACTTCTAAAA 3055 29 100.0 37 ............................. GAGGTAAAAACTGTTCATGGAAGTGACATGGATACAG 2989 29 100.0 37 ............................. GTTCTTGAAAGCGAAATAGCGAAACTATTAGCGGAAG 2923 29 100.0 36 ............................. TACTCTCCGTATTCGTCATCAATTCTATCTTGAATA 2858 29 96.6 37 ............................A TGATAATAAGACTGAAAATAGTGCGAGTATTTCATTA 2792 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [2735] 2734 29 69.0 0 AC........T.A....CAT.T.C..... | A [2719] ========== ====== ====== ====== ============================= ====================================== ================== 23 29 98.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-75.0]%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 8740-9886 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000071.1 Clostridioides difficile strain LC1-13-1216 NODE_71_length_22092_cov_8.41489, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 8740 29 100.0 35 ............................. TAAAGAATAATCCTTACTAGGAATACGAGACAAAA 8804 29 100.0 37 ............................. ACTGCAGATATCGAGTTATAACTTGAAGGAACGCTTA 8870 29 100.0 37 ............................. TAAATAAAATTTTAAAGCACCTTCATAGATCTTTTCA 8936 29 100.0 37 ............................. AATGCTTATTTAGCAAGCCTTTACTGGGATAGTGAAA 9002 29 100.0 38 ............................. CCAGTATTATTCCAAGTATGAGAAACAGCATCTGACTC 9069 29 100.0 37 ............................. AAAATTTTTAAAAAAATATCACGTTCTTTTTTTCTAA 9135 29 100.0 36 ............................. TCCTTTTTATCTTCGAAAATAAGGTTGGTATACTGC 9200 29 100.0 37 ............................. TTTTCTCCACCTCATTATTATATTTATAATATTATAA 9266 29 100.0 38 ............................. GGAGAAGGTTATTTTAATAAATATACTTCAAACTTAAG 9333 29 100.0 37 ............................. ATGTTATAGTTTGAATATATTCAGTATCTGTCTTATA 9399 29 100.0 38 ............................. TTATTTCTTTATCTATTTTTTCATATGCTTTATTTCTT 9466 29 100.0 37 ............................. TCTGCTACAAGATTTGCAATAGCTCCTTTTAGTACTG 9532 29 100.0 36 ............................. AAATGTCTTTCACTCGAAAGCGCAATAACATCCCTG 9597 29 100.0 36 ............................. GACTGAGTGTCCAACTTGTAAAAGACCTCTTGACTG 9662 29 100.0 37 ............................. ATTCGTGTAAATGAGTGCAATAATAGCATGTACAATA 9728 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 9793 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 9858 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCCAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCCCTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGATGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGCGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 509-670 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000084.1 Clostridioides difficile strain LC1-13-1216 NODE_84_length_17255_cov_14.904, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 509 30 100.0 35 .............................. GAAAATGGCAAAGGAAGCTCTAGGACTACATCTAT 574 30 100.0 37 .............................. TTACTGCATTTATACCATCTACACCTTTTATTTTATT 641 30 90.0 0 .....................C.TA..... | ========== ====== ====== ====== ============================== ===================================== ================== 3 30 96.7 36 GTTTTAGATTAACTATATGGAATGTAAATT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGTACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTCTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTG # Questionable array : NO Score: 5.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : GTTTTAGATTAACTATATGGAATGTAAATT # 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: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 2 1272-2221 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000084.1 Clostridioides difficile strain LC1-13-1216 NODE_84_length_17255_cov_14.904, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1272 29 100.0 35 ............................. TCTCCTGACTTCATATAACGTTTATACTCACATTA 1336 29 100.0 37 ............................. AATCCAAATTTCAGTAAAATAGGTGTTGGAGTAGCAC 1402 29 100.0 38 ............................. AAATTATTAGCACATACTTCTGCTAACTTCCCCATCAC 1469 29 100.0 36 ............................. ACGAGAACCATCCAAAACAATAGGTTGTATACAAGG 1534 29 100.0 36 ............................. AACGTATAAATTCCCTTCTATTATATATCCATCACC 1599 29 100.0 39 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAAT 1667 29 100.0 37 ............................. TTTGTTGTTGTACAAGGGAATGTAACTAAAGATGTAA 1733 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 1799 29 100.0 38 ............................. ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 1866 29 100.0 37 ............................. CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 1932 29 100.0 37 ............................. TGAGGTTTTTCACCTACACCACTTTTTTGGTCAGTAC 1998 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 2064 29 86.2 36 ......T.........G...T.......G GGAACATAAGGTAAATCATAAGAAACTCCAACAAGA 2129 29 82.8 35 A.....T.........G...T.......G ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 2193 29 79.3 0 A.....T.........G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 96.6 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGATGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTTGGTCGGTTGGGTAAAATAGTTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGTCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAA # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 [0-15] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 16485-15405 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000086.1 Clostridioides difficile strain LC1-13-1216 NODE_86_length_16975_cov_13.0535, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 16484 29 100.0 36 ............................. TGCTCTTTAAAATTATCAAAATCTAAATTCACTGGA 16419 29 100.0 37 ............................. TTTATTACATTATCAGCATTTCCTAAACTAAATAAAT 16353 29 100.0 37 ............................. CTAAAGTCCAAACACCTTCCAATTTTCCTGTAGGAAA 16287 29 100.0 37 ............................. TCAAAATTATTTAGTTATACTAAACATTATATTATAT 16221 29 100.0 36 ............................. GCTATAGGAATAGCAATAGCTGGTGTTGTTGGAGGA 16156 29 100.0 36 ............................. ACTTACATTTAATGGTAGGGTGTGCCGAGCGTTTAG 16091 29 100.0 37 ............................. TTTTCTAAATACTTCTTGTTGTATTTCTAAGATTTCT 16025 29 100.0 37 ............................. ATTGTTTCTTTAACGCTTCCCGCGTGAGAGTTCGCAC 15959 29 100.0 37 ............................. TGAAAAGTAGCATGTTCTTTAACAAAAGCATCTAATT 15893 29 100.0 37 ............................. TCAGAAATTAGATTTTCTTATACAGAAATAGAACTTT 15827 29 100.0 37 ............................. TTAATTTTATAAAAAGCTAAAAATGGGTTTATATATA 15761 29 100.0 37 ............................. ACGCAACATCCTGTTGCATTGCTAAGAGTTCAGAATC 15695 29 100.0 36 ............................. AATATGGAATTAAACAAATGCTTTAATGATTTATTG 15630 29 100.0 37 ............................. ATTGCGATTTCCATTATGGGTGTTTTTTATGTCTGGG 15564 29 100.0 37 ............................. TACAATTCCAGCGATTTTTAATCAAGCAAAAGCAACT 15498 29 100.0 36 ............................. TCTTCATATTTATTCATGTATTCAATGATAGCATCT 15433 29 89.7 0 .......................GC.G.. | ========== ====== ====== ====== ============================= ===================================== ================== 17 29 99.4 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : CTATATTAGTTATAAAATGCCATGCTTATATTATGTGTTTGAATTAAACTAAATTAGTTGAGATATTAAGAATTAAAATGTTAATATAAGTAAGTTATATTAAAATATATAAAAATCATATGATAATATTTATATATTTTAGATAATGAAAAAACTAATTAAGGACATAGACATGTTTTTAATAGTTTGTATTTTGAGTATAAAAAGATATTGATTGTTTAATTGATATCTTTTTATGTTGATGTATTATATCAAAATGTATGTAATAATTCTATTTAGATATGTTTTTAAATTTATTATGTTTTAAAAATAATATTTAGTAGTTTTGGTTTTGCAGTGAGCGAAAAAATTGCATAAGTGGCTGTAAATTAGTGATGGCAAAGATTACAACTGTATTTTTGATTATACCAAAAAACACTACTTAGCGCTCACTGCAAATTATTCATTTTAATAATACTATAAGTATTGGAATTACTGTAGTTTTATTTGG # Right flank : ATACCAGAAAGTATATATAAAATTATGTGTAAACTATATTGTTATGAGTACAAATAATATTTACCTATTCATTAAAAAACTTAACTAAGAATTTGATTTATATTATTGAAGTATCAATAATTTTGGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAACAATAAAAAATAACCAAAAAAATCAGTCTAATATCATAACTAAATAGCTATATATCTACATTTACAAAAACCAACAAAACAATCAAATAACCACTTATAGACTCCCCTCATCTCCAACATTGAAATCCACGAATATCTATATCCAATTGGATATAGGTATTTTTATACATTTTTAGTTTAAATATTATTGATAAATACATTTAAAAAGTTTTAACCTAAAGTGAAGAATCTAAATAAAAATAAAATATTAGGAGAGGTTATCATTACAATAACAGCTTGTGACGATGAAAAAGAAATACAAATCGTAATAAAAAATCAAGTTGATAAT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTAAATTACACTAAGTTAGTTATAAAT # 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: NA # Secondary Structural analysis prediction: NA [-0.30,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [81.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 7413-8037 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000093.1 Clostridioides difficile strain LC1-13-1216 NODE_93_length_13735_cov_9.59634, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 7413 29 100.0 38 ............................. ACAAAGAATACAAGCCCTACACCAATCAGAAGTATTAC 7480 29 100.0 37 ............................. CCAACTAAGTCTCCTGTTTTATCTTTTTCCTCATATT 7546 29 100.0 37 ............................. GACCTTTCTGTTTATTTTAGAAATCGTTCTGATAGTG 7612 29 100.0 37 ............................. GGATATTACTTGCGTCTATTCCTTCGAGTTTTTGAGA 7678 29 100.0 37 ............................. CTTTATTCATGTACACATCATCTAAATTGTAAACATG 7744 29 100.0 37 ............................. CACATATCACCTCTATCTTTTACTTTTTAAATGTATT 7810 29 100.0 37 ............................. TTTTTAGATTTAGAAAGTAGATTTGGAGTTGTTACAG 7876 29 100.0 37 ............................. AGGATTCTGCTTACACTTAATAGAAAAAACAGTTCGC 7942 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 8009 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACACTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAATAGGGGATATCTTTTTTATGATGGGAATGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2411-672 **** Predicted by CRISPRDetect 2.4 *** >NZ_QWVG01000142.1 Clostridioides difficile strain LC1-13-1216 NODE_142_length_2744_cov_8.69431, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 2410 29 100.0 35 ............................. TCCTCTTCCATTTAGTTTCTTATTATGTGTCTCTA 2346 29 100.0 38 ............................. GAATATTTTAGCGCGTCGACTATTGATACACCTTTATA 2279 29 100.0 37 ............................. TATAATTGATTATATGAGTTCTAAGTTATCATCTATA 2213 29 100.0 36 ............................. TATAGAACGTAACTATTTCAGTCTCTTTACTTTGCA 2148 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 2081 29 100.0 38 ............................. AACATTGCAACACCAGCTTGCTCGCGTTGAATAGGGTC 2014 29 100.0 38 ............................. GAAGCACACTTACAAGTAAGATAAAAGACCCTGGTACA 1947 29 100.0 36 ............................. TTTAAGAATTATCTTGTACTTTTTTAGTAGAAGAAA 1882 29 100.0 37 ............................. TACTGAAAACCAGCCATATACATACCCACATACTCCA 1816 29 100.0 39 ............................. TCCATTCTTGCATCACTTGCTCCAGTAGTCATAACAACA 1748 29 100.0 38 ............................. CATTATTGTTGCTGAATAAATCCACTTCTCATTCTCAA 1681 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 1614 29 100.0 37 ............................. TTTTTTGTTTTTGCTTCATCTTTTTTATCTTTATTCA 1548 29 100.0 37 ............................. AAAATTGCTGAAACAATAGTGATAAGAGAAGATGCTG 1482 29 100.0 35 ............................. AGAGTTGAGGTTGAGTTGGAGGATATTATTTAAGG 1418 29 100.0 36 ............................. TTTTTATTCTAAGAAACTTTTCAATTCTAGTTCTTC 1353 29 100.0 37 ............................. TTTGAAAGTTGTAATATAATAGATTAAAAAACTAATT 1287 29 100.0 36 ............................. GCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 1222 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 1161 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 1096 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 1031 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 965 29 100.0 37 ............................. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 899 29 93.1 38 ...............T.C........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 832 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 766 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 700 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 27 29 98.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : AGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATAATAGATGTAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //