Array 1 404-956 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860216.1 Clostridioides difficile strain HMSC19D05 Scaffold253, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 404 29 93.1 37 ........................G...G AGGTTTTTCAGAAGTATATGTACGTCTATATTGTAAA 470 29 100.0 38 ............................. TTGTGTCACATCATTGTCACTTCTTTAGAATATCAAAA 537 29 100.0 36 ............................. AAGGAAGGTGGAAGTCAATATGCATGGGTCAAATGG 602 29 96.6 36 ............................G ACGAAATTAGAGTTTGAAATATATGACTACATAATA 667 29 100.0 37 ............................. TCGAATGTGAATGGCACTTCTATTTCTCCAACTTTTG 733 29 100.0 35 ............................. TACTTTAGCACTAGTAAAGGTAGAATTATTAAAGT 797 29 100.0 36 ............................. TTGCAGGTTTTCCTTATAGTTTGCCATATGTTCCTG 862 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 928 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 95.4 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TAACTGTATAAAACAGTGGGTATAGTTCAGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGTATATGATAAACTTTATCATTTGCACTACTCATGGTTCACTGCNNNNNNNNNNNNNNNNNNNNTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGGGTAAAG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTATTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGATCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATCTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATCATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 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 [2-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-75.0]%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 55122-55744 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860212.1 Clostridioides difficile strain HMSC19D05 Scaffold229, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 55122 29 100.0 39 ............................. ATTCCGGAAAGTACTTTTGCTATTTGATTCATTCTACCC 55190 29 100.0 36 ............................. TATGTGTAATGTATTTTAATGTTTTCTAGCAACAAT 55255 29 96.6 37 ................A............ TTTATAAATTCTATGAATAATTTTAAAGAGAGGTTTC 55321 29 100.0 37 ............................. TTCACTAATTTTAGTTACAACTATTACAAGTCCAGCC 55387 29 100.0 36 ............................. TGTACATTTGACATAGAAGCTTCAAAATCCATCCCA 55452 29 100.0 37 ............................. GTAACAGCACGAATGATGGCACAGACCTATCTGCAAT 55518 29 100.0 39 ............................. AGAAGTACACTTACAAGTAAGATAAAAGACCCAGGTACA 55586 29 100.0 36 ............................. TCTGTAGCTATATGTGGAAGTAATTTTAGTAGAGAG 55651 29 100.0 36 ............................. TATTGAAGGGGTGAGAGTTGTGACTAGGCACTACAA 55716 29 89.7 0 .....G..........A......G..... | ========== ====== ====== ====== ============================= ======================================= ================== 10 29 98.6 37 GTTTAAATTACACTAAGTTAGTTATAAAT # Left flank : GGGTATGGAATAAATCTGCTAATAATGATATGTTAAATAATGATACTATTAGTGTTGTGCCTGAATGTCTTTTAGAAGAGTACAAGTTGTATATTGATAAAAAAATGTATTTAGAAGCGAGTTCATTATTTGTAAATGTATCTGTAAAAAGATACAATTATAATAAAAAGATGTTTTATGAATGTGGAGATATAGTTGTTACAAGTTATAGTTATAATGATAAACTAGGTCTAATATTTGATTGTTAAGAGAATTATAGTATAACTAATTAAAATATTTTATTGAGAATTTGTTATAATTTATATCGACTACAAATTTTATATGTTACAATAGAATAATTTTGCAGTGAGCGAAAAATATGTGTAAATGGCTGTGAGTTAGTGATGGCAAGGTTTATAACTGAATTTTTGTTTTTAGCTAAAAACACTACTGGTGCCTCACTGCAAATTAACTATTTTAATAACCCTACAAGTGTTGTAATTACTATAGTTTTATTTGGG # Right flank : TTTACTTATTCATTAAGAAACTTAACTGAGAGTTTGATTTATATTATTGAATTAGCAAGAGTTTTAGAAAGTAGAAAATTATACCCCAATAATACCCCAACCACAAAAATAAATAATAAAAAATATCCAAAAAAATTAGTATAACATCATAACTAAATAGCTATATACCTACACTTACGAAAACCAACAAAACAATCAAATAACCACTTGTAGACTCCCCTCGTCTCCACCAATTTTGAAAATGAAAATAATAGAATAAAAGGAATTACTTATGTTTGGACTAAGTAATTCCTTTTATTTTGCTTAAAAGCACACAATTAGCACACAACTAGAAGGTTATATAAATAAAAAGGCTGTCGCACTAGAAAATAGTGCTACGCTCTTTTTTGTATAAAAAAATAAATCCCAAGTTCAAAAGAACCTGGGATTCTTGTATAATAACTGTATGCTAAAACAAAATACTACACAAATTGATTATACTACTTATGGTGATAATTATC # 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 : 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 [0.00,-0.30] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 53963-53045 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860259.1 Clostridioides difficile strain HMSC19D05 Scaffold655, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 53962 29 100.0 20 ............................. NNNNNNNNNNNNNNNNNNNN Deletion [53914] 53913 29 100.0 37 ............................. GGTGATAGTGGAAGTTTTACTTATACTTGGCGTGCTG 53847 29 100.0 37 ............................. TTTAGAAACAACAGAATAAACATAATATATAAGCATA 53781 29 100.0 37 ............................. GTTTTAGAACAGAAAAAATTGTATAAATTGTGGAATG 53715 29 100.0 37 ............................. TTGTAAAATGTAAATAGCATATTAATTTTTCTTTCAC 53649 29 100.0 37 ............................. TTAATTTATCTATAATTTAAAACGGTGAATTACATAT 53583 29 100.0 37 ............................. ATGTCCCCACATCAATTTTCCTCCGCATGAAAAAATC 53517 29 100.0 37 ............................. TGGAGCATTATGTTTTTAGGTTACGGAGCAACATTTA 53451 29 100.0 38 ............................. TTCAGAATACTTAGCTCCTGCGCCTATATCGTCTGAAT 53384 29 100.0 36 ............................. AAAGTTTTGCGCATTGTATGTGTGCCTAGATTATCT 53319 29 100.0 18 ............................. NNNNNNNNNNNNNNNNNN Deletion [53273] 53272 29 93.1 39 NN........................... TTTTACTTTTCCTTTCTATGTGTCCAATTCGGACACATT 53204 29 96.6 37 .................A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 53138 29 82.8 36 .C.............CA..A...A..... TGCAATTTTTATTCGTTGTCCAATCGCTTGAAATTT 53073 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 97.9 35 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACACTTAAGTGACATTTAAGAAAAATATAATGCTTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAAAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTACTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTATCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAAGAGATGTCCTTTAAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTGCACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.13, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [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 23801-24143 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860199.1 Clostridioides difficile strain HMSC19D05 Scaffold104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 23801 29 96.6 36 N............................ CTCGGAGAATTTCCTAATGTGGATTTAATAGGAAGT 23866 29 100.0 37 ............................. TTTAGCAAATTTTTCGTAAAAGTCACTATTTTCAATG 23932 29 100.0 38 ............................. ACATATAAAACTTTCATCTTCTGTTAATTCATTAAAAC 23999 29 96.6 20 ............................N NNNNNNNNNNNNNNNNNNNC Deletion [24048] 24048 29 100.0 38 ............................. CCATCTTTTGTTGTTTTACATAAATTTATATTACTTAC 24115 29 89.7 0 ........C........C.....A..... | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 97.2 34 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : AATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCTATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGGGTTTTATATTAACTATATGNNNNNNNNNNNNNNNNNNN # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:-0.19, 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 [1-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [55.0-83.3]%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 2 116564-116789 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860199.1 Clostridioides difficile strain HMSC19D05 Scaffold104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 116564 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 116629 29 100.0 37 ............................. TTCAGTGAGAATAAGCTTTATTGTCGATGTAACACTC 116695 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 116761 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 95.7 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : GAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAATAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATNNNNNNNNNNNNNNNNNNNNCAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGAAAATACTCAACTTATTTTGGG # Right flank : TTAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAATTACTTAATTATAAAGTTGCTAAGTACAACTTTTTAGAATTATACAATATAAAAATGCACTAAAGTGATTGATTTTGCTCAAGTTGGTCGGTTGAGTAAAATAATTAGAAAAAAATGTTAAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAAAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAGAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGCTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATA # Questionable array : NO Score: 5.65 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 3 118654-118943 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860199.1 Clostridioides difficile strain HMSC19D05 Scaffold104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 118654 29 100.0 37 ............................. CTTTGTAATGGTAGTGTATTTAAGATTGAAACATCAA 118720 29 100.0 36 ............................. CAACATTAGTAGTTGTCTTTATACACATAGCATCAC 118785 29 100.0 38 ............................. ACAGCTCCCAAGACATACAACGAATCTGTAACATCAGT 118852 29 89.7 34 ................G...T.......A GACTTATTTACAGCTTTATTTGCTAAATCAGAAG 118915 29 86.2 0 ................G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 95.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : ATTGCAGGTGAAAAGAAGAATTATCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTAGTTTAGTTTTGGGGGGATTAATACAATGCATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATAATAAGATAGAAAGTATAGTATATAAACTTTCTTAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTTCACTGTTTCAAGTGCTTTATATGGTAAAAAATGGTATAATAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTCAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TTAAAAATAATTAAAAAACACTTACTAATGTAGGTGTTTTTTTATTGAAAGGAAGTGATTATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGAGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCACTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGAGATTTAAAATTAACTGTTAATAGCATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCATACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCATTCACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTGATGT # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 : 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-80.0]%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 34751-35405 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860261.1 Clostridioides difficile strain HMSC19D05 Scaffold716, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 34751 29 100.0 36 ............................. TAGGATTGGTGTGTTACGACCACACAACGCTGGACT 34816 29 93.1 18 ...........................NN NNNNNNNNNNNNNNNNNN Deletion [34863] 34863 29 100.0 37 ............................. TTAAATCTAGCATCAGTCATTAGTATAAAATTTCCTC 34929 29 100.0 38 ............................. AATAAAAAAGGTATAGTTTTCTTCTTAGTTACTGCCAT 34996 29 100.0 37 ............................. TGTTATAATATTAAAACACAACTAAAATATACAGAAA 35062 29 100.0 36 ............................. TCTAGTTTTTTCTCTTTAGAAAAAATAAAAACAACT 35127 29 100.0 39 ............................. AGTGAATTTGGCGAACTCGATATAGAGAAAAAAATAAAG 35195 29 100.0 37 ............................. GAAGTTTTTAATGTTGTCGCGACTCTTGCTGTTGCTT 35261 29 100.0 20 ............................. NNNNNNNNNNNNNNNNNNNN Deletion [35310] 35310 29 96.6 38 ............................T TAAAATTGTGTTTTCTCTTTCATACACCCACTTCATTA 35377 29 86.2 0 ............T......T...A....T | ========== ====== ====== ====== ============================= ======================================= ================== 11 29 97.8 34 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTAGAAAGAGAAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAGTTTAAAAAATTGTTAATGAAAATAAAAGACTTGTTGAGCTAAAGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGTTTTTTCTTATTAAATAAAGATTGAGTCACTTTATATTTAATAATACATATTCTAAATTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGAATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGA # Questionable array : NO Score: 5.95 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.19, 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 : GTTTTATATTAACTATATGGAATGTAAAG # 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 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 [2-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-85.0]%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 208690-207792 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860271.1 Clostridioides difficile strain HMSC19D05 Scaffold977, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 208689 29 100.0 36 ............................. TCCATTTGTCTAATGCTTCTAACTCTTTTTTTATAC 208624 29 100.0 36 ............................. TTAAAGGTGCAAGTCTTAATACTTGTTACATGAGTT 208559 29 100.0 37 ............................. AACAAAGAACCATTTGAATCACGAAAACTAAAAAACA 208493 29 100.0 18 ............................. NNNNNNNNNNNNNNNNNN Deletion [208447] 208446 29 93.1 41 NN........................... AGACTCGACATAGAATCGGTTACTAAATCCGAGGGTTTAAG 208376 29 100.0 38 ............................. TAATTACACACTCCCTTTTAACGAACATATTTTAGATT 208309 29 100.0 37 ............................. ACTAAACCTTTTTGTTTACTTTTATTTCTCATTTTAC 208243 29 93.1 18 ...........................NN NNNNNNNNNNNNNNNNNN Deletion [208197] 208196 29 100.0 37 ............................. CATTGTATACTAAGCTTGATATAGTGCAAAATGAAAC 208130 29 100.0 37 ............................. ACAATATTATTGTTCATTTCATTTAATAATTCTAGTA 208064 29 100.0 37 ............................. TTGTTTATACCTTTAATCTTTAAAATTAAATATAAAA 207998 29 100.0 37 ............................. CCAACCCTTCGCACGAATCCGTGCGACGAAATATAAA 207932 29 89.7 17 ..........................NNN NNNNNNNNNNNNNNNNN Deletion [207887] 207886 29 96.6 37 ............................G TGCTGTGCCACAATTTGATGCTTCTATAGCTAAATTC 207820 29 96.6 0 ............................G | ========== ====== ====== ====== ============================= ========================================= ================== 15 29 97.9 33 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : GAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGGGTTTTATATTAACTAAGTGGTNNNNNNNNNNNNNNNNNNNNTTATATTAACTAAGTGGTATGTAAATTCCAAAATGGGCTTGGAGTTAAGAGTTGTATAAGAAAC # Right flank : ACAGATCTAATATCAAAATAAGGTTATGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTTAACTCTCTTAAACCATTTTCATATCCTTTAGTAGATACTTTTGTTATTTTTTAATCTTTAGTAACTTATTCTTGAGTGAATCTCTTATTTTTTCTAAGCTATTTCAAGCTTCTCAAAAAATTCTATATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAACATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATTCTTTGATTTAC # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.23, 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 [3-2] 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 2 236149-235718 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860271.1 Clostridioides difficile strain HMSC19D05 Scaffold977, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 236148 29 100.0 38 ............................. TTGCTATGATTTAATTATACGACGTTTTGTCTTTAAAG 236081 29 100.0 37 ............................. TTTATAAATCTTTTAATGACTGTCTCTGATGGTAAAG 236015 29 100.0 39 ............................. TACGACATTGAATAAAATGGGTACAGAGACAATTTATAA 235947 29 100.0 37 ............................. GCAGAAGATTTAGCGACTGTTGTTGCTGAATGGGATG 235881 29 100.0 38 ............................. CCGCTTGGCAAATCATAAGAAGGATTATTTTCTCCAAC 235814 29 100.0 39 ............................. AAAGGAATAGATGATATGATTGCTAATGCTGAACAACAA 235746 29 96.6 0 ............................N | ========== ====== ====== ====== ============================= ======================================= ================== 7 29 99.5 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGGATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAAATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCCTAACAGTTGAAATATAAGGCATTGAGGGTATGTGATAAATGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGGGTTTTATATTAACTAAGTGGTNNNNNNNNNNNNNNNNNNNNTTTATATTAACTAAGTGGTATGTAAAGAAAATAAAAGAGTTTGAATTACCCATTTTTTCATG # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-76.7]%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 3 328791-328564 **** Predicted by CRISPRDetect 2.4 *** >NZ_KV860271.1 Clostridioides difficile strain HMSC19D05 Scaffold977, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 328790 28 96.6 38 -............................ TCATCAATATTAATTTTGGGAATATCAACATTTTTTGC 328724 29 100.0 37 ............................. GCGATAAGAGATTCGAGTCTTTTTACTGGGCTTAATC 328658 29 100.0 37 ............................. ACAAGAGGTTTTTCAGCAATATATGTACTTCTATAAT 328592 29 96.6 0 ............................N | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 98.3 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : | # Right flank : NNNNNNNNNNNNNNNNNNNTTTTATATTAACTAAGTGGTATGTAAATAGGATAAAGAAAAGACTCACACAAGACACAGTGTCAGGTTTTATATCAACTAAGTGGTAGATAAGTAGAATATTAGCAATATCAACGAGTATTTAGAAACTTATTTTATATTAATAAAGCAGTATATAAAATTGTAGAATAAACAATAGCATATACTAAAACATCCACCTTATATTAACTAAATCATATCTAAATAAAATGCACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATA # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [55.0-0.0]%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], //