Array 1 5104-5922 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000186.1 Clostridioides difficile strain HC31A NODE_366_length_11048_cov_19.729635, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5104 29 100.0 37 ............................. ATTCTTCTTTTCTCTTTTTTAAAGCTTCTTTTTTATC 5170 29 100.0 36 ............................. GGTAAATTTCCAAAATTTCCAAACCCGTCGAATCCA 5235 29 100.0 37 ............................. GACGAAGCTGTAGAAGAAGGTAAATTGATTTTAATAA 5301 29 100.0 37 ............................. TCAGAACTTTTAATCTTATTTTTTGACATATAATAAA 5367 29 100.0 37 ............................. GAAATTGTTAATGTTGTTGCGACTCTTGCTGTTGCGT 5433 29 100.0 37 ............................. CTCTTTCAACTTCCATTTGCGGAGCTGATAAGTCATT 5499 29 100.0 36 ............................. TCAGCGTAAGGAATCTGAATATTAATAACACCAGAA 5564 29 100.0 37 ............................. TTGTATTATTACTTTTTATCAGAATAATCAAAAGATA 5630 29 100.0 37 ............................. GCAGAAGAAACAGGTTTCAAAACGATAAAAAAATAAT 5696 29 100.0 37 ............................. AAAATTATAGACAGAATGATAAATGTATTTGATGCTT 5762 29 100.0 37 ............................. ATATTTATAATGATATATTAATTAAGTACAATTCAGC 5828 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGGA 5894 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ===================================== ================== 13 29 97.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAATTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTAATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: 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 44135-44424 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000260.1 Clostridioides difficile strain HC31A NODE_512_length_48128_cov_40.127743, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 44135 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 44201 29 100.0 35 ............................. GGGTAGGCTTTCCGATTTTCATGTGTTTGATGCTC 44265 29 100.0 37 ............................. ATGAGAGATTTACAACTTAAAGGTTCTAATGAATTAC 44331 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 44396 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 100.0 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGTCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACTTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGCTAAATAAAAAATTACCAGATGCAGAATTAA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 3823-2474 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000261.1 Clostridioides difficile strain HC31A NODE_513_length_6816_cov_31.632042, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 3822 29 100.0 38 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGAGG 3755 29 100.0 36 ............................. CTATAAAAATAAATCATACAATTTCACCTCACACTT 3690 29 100.0 37 ............................. AAAAATGCAACTCCACCAACTGCTATCATGAAAAAGT 3624 29 100.0 36 ............................. TTTGAAATCAGTGATAAGTGTTGTGAGGTTATGAAA 3559 29 100.0 37 ............................. TTTTGCGCCCCTTGTGCAATTAAATTAAATGCTTCTT 3493 29 100.0 36 ............................. TATTTTATTCTTTTGCAACTCTCAACTGTGAAGTTG 3428 29 100.0 39 ............................. AGAATTGATATTTATCTACGTTTTGACTTTCGTATGCTC 3360 29 100.0 38 ............................. AACAATCAAATAGTAGCAAAGATGGTATCTATATATAA 3293 29 100.0 37 ............................. AAGAAAGGAGTGTTTTTTTTGGGAGAAAGTGAAATGA 3227 29 100.0 37 ............................. TAGGATATAGAACGAAAGGTACGGACGGCAAATATAG 3161 29 100.0 37 ............................. CGCTTTCAGTAGCTGTCGTTTCGTCTGGAATATTAAA 3095 29 100.0 39 ............................. TAGCTTGATAATAACCACCCTCCATAGGATTATCAGATG 3027 29 100.0 37 ............................. GATGACATGATAGTATTAGCTAATACAGAAGTAAAAC 2961 29 100.0 37 ............................. TTGCATTCTCCCAACCATTCTAGATATTCTCCATAGC 2895 29 100.0 38 ............................. AGCCTTGTCTCAATATGAAAGAGATTTAAGAATGCCAG 2828 29 100.0 37 ............................. AAACTTGAAACTGATGAAAAATATAGAGCATATATGC 2762 29 100.0 36 ............................. TGAGTTAATAGAAAATTTAAATACTAATGAAAAAGT 2697 29 100.0 36 ............................. GTTATTGTATTTACTATAGCTTTTACCTTGTTAACA 2632 29 100.0 36 ............................. CTTGATGATTGGCGAGAATACTATATTTGTTGGTCA 2567 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 2502 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 21 29 99.3 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAATTATTACATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 14470-14696 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000289.1 Clostridioides difficile strain HC31A NODE_544_length_26360_cov_52.247913, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 14470 29 100.0 37 ............................. TTATCTGCGTCTTCTGAAATAGCATACTCTTCAAGAG 14536 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 14601 29 100.0 38 ............................. CTTATTTATAGTTGGGAAAATGGTTATAAATGTGGTAC 14668 29 96.6 0 ............................G | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGTTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : GCAACAAGAACAACAGTTGATTTTACCTTTTCTAGCCAACGTTTTATATTAACTATGTGGAGAAAAACTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTACCTTATATTGGAAATTTGTATAAAGATAAATTATAATGATTATATAGATATTTATGAGGGGGATTACGCTATGGGATTATTCAAAAAGAAGGAAAAAGAAAAAGGCATTTGTATAATTTGTGGTAATGAAGGAAATGCTTTAAAAACTGTAGATAATGAGTTTTTATGTGATGAATGTTTTGAAAAATGCAGAGGTGAAATAGCTGTTCTTGGTAAAGGACTAAAAAAACTGACAAGTAAGGAAGTTATGAATGCTGTAGAGTTATGTAGAGATAATTTTGGAAATTTTGTTAAAAACACATTAATACAAATTGTATATTTAGGAGGACATCCTTTATTTAATAGAGAAGAAATGATTTGTCTTTTAATTAGAAGTGACAAGAT # 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 : 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [61.7-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 17364-17589 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000289.1 Clostridioides difficile strain HC31A NODE_544_length_26360_cov_52.247913, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 17364 29 89.7 37 .AA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 17430 29 96.6 37 A............................ ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 17496 29 100.0 36 ............................. TACACATTTTCTCAAATTTGGACTTCAATTAAAAAT 17561 29 86.2 0 ....................AC.TA.... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 93.1 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TGAGATTATTAAAAAGATAAAATTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACGAATGGTTCTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAGGTTAGAACTTGGATAGAGGAGAATAATAGACCAGCTAAGATTGAAGGTGAAAAGAAGAATTTTCATGTAGTGTATAAGATTGAGTAAATTTGATTGTATTAAATAGTTTAGTTTATTTTTGGGGGGATTAATACAATGTATGAGAATTTACTTAAGGAGTACAATTTAAAAACTGATGAAGATGTAGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGA # Right flank : TTAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATTGTGCTAGGGGGATTTGTTATGTTTTGTTCGAATTGTGGTGCAGAAATCACAGGCGTAGGCAAGTTTTGTTCAAGTTGTGGGGTTGCTGTAGAAACTGAAATTATTGAAGATAATAATATTAAATCAAATGACCTAATCGTTGATGCAAATGGAATAGAAATAAATATGACTGAAATTTATAGAAAATATAGAAAAGAAAAAGTAAATGCAATAAAAAATGTAATGGAAATAAGTGGTTTGAATATAAAGGAAGCAAAAAAAATAGTGGATTCTTCCTTTGAAGAGTTAAAAATCAATTTTATTGATGATACTATGAGCAATTCAGAAAAGGAAAAAATAATAAATACTCAAAATAGAAAAAATAATATTGAAAAAGCTCAACAAGAATC # Questionable array : NO Score: 3.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 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 : 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:80.77%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% 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: NA [71.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 9958-10844 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000290.1 Clostridioides difficile strain HC31A NODE_545_length_10760_cov_33.655949, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 9958 29 100.0 37 ............................. TACTGAAACCCAGCCATATACATATTTACATACTCCA 10024 29 100.0 39 ............................. TCCATTCTTGCATCACTTGCTCCAGTAGTCATAACAACA 10092 29 100.0 38 ............................. CATTATTGTTGCTGAATAAATCCACTTCTCATTCTCAA 10159 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 10226 29 100.0 37 ............................. TTTTTTGTTTTTGCTTCATCTTTTTTATCTTTATTCA 10292 29 100.0 37 ............................. AAAATTGCTGAAACAATAGTGATAAGAGAAGATGCTG 10358 29 100.0 35 ............................. AGAGTTGAGGTTGAGTTGGAGGATATTATTTAAGG 10422 29 100.0 36 ............................. TTTTTATTCTAAGAAACTTTTCAATTCTAGTTCTTC 10487 29 100.0 36 ............................. GCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 10552 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 10617 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 10683 29 96.6 37 ...............T............. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 10749 29 96.6 38 ...............T............. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 10816 29 93.1 0 ...............T.A........... | ========== ====== ====== ====== ============================= ======================================= ================== 14 29 99.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : CTTATACTTAGTTAGAAC # 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2989-3216 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000382.1 Clostridioides difficile strain HC31A NODE_698_length_3479_cov_23.698765, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2989 29 100.0 36 ............................. TCAGCACTTGTTGTGCTACCGTTTTTTAATAAACTA 3054 29 100.0 38 ............................. TTTATTGAATCTTTCAAAGTCTCTATAAAGTTTTTTAG 3121 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 3188 29 93.1 0 .................C.........G. | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 98.3 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCGTTCTTTAACTCTAATTTATC # 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 : 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:83.33%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 [0-3] 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 2254-2096 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000454.1 Clostridioides difficile strain HC31A NODE_774_length_5019_cov_16.008966, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 2253 29 100.0 35 ............................. TGAAAATTTAGTTAAAAACTGCATCAAAGTATTGA 2189 29 100.0 36 ............................. GATAGCAAAGCTTGCAAAGTAGATATTTGTGTTTTT 2124 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ==================================== ================== 3 29 98.9 36 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCATCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 14085-13531 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000093.1 Clostridioides difficile strain HC31A NODE_241_length_34757_cov_50.341427, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 14084 29 100.0 34 ............................. CCTTATCAAAATAGGTTCTATCAACATCCCAGAG 14021 29 100.0 36 ............................. CATCATTTCAAGATTCAAACAATAATCAAGAGAATC 13956 29 100.0 38 ............................. AACATTCGTACAGCTTTAAAGATAGCTAGAATTTTAAA 13889 29 100.0 36 ............................. GTTGAAGCTCGAAAGGTGATATTAGAGATACTTAAA 13824 29 100.0 38 ............................. TTTTGTGTTGCTGTAGCAAGTTCATTACTTTTTTGCTG 13757 29 100.0 37 ............................. GTATTAAGTGATATAGTATTTGCAATAGCTGCTTTTG 13691 29 100.0 37 ............................. GCGAGGGAAGTTTTTCAAAAGAATTGTATAGTTGAAA 13625 29 89.7 37 ......T.........G...T........ ATGTATATCCCAGCAATACTTTTTAGTTTAGACACTA 13559 29 82.8 0 ......T.........G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 96.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATGTTGTATATAAGATTGAGTAAATTCTATTGTATTAAATAATTTATTTTAGTTTATTTTAGTTTTGAGGGGGATTAATACAATGAGTGAAAATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGCGAAGAAAAGTTTCAAGAATATGCAGAGATATTAAGAAGTATTCTTAGGGAACAACAGGAGAGAGAAAATAAGTAAAATAAATAGATAAAGTACTTGGATATTATGTTGTTTCAAGTGTTTTATATGGTGAAAAGTGGTATAATAGAGATAGAAGTTTTGCAGTGAGCGATATTTGTGATAAAATATGGCTTAATACTTGAAATATAAGGCATTGAGAACGTATGATAAGTGTTATCAATTGCACTATTGGTCGCTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGGAAATACTAAGTTTATTTTGGG # Right flank : TAAAAATAATTAAAAAACACTTACTTAGGTAGGTGTTTTTTTAGTTGAAAGTAGGTGATTATAACGTAAAAAGTAATAAACAGGTAAAATATGTAAGTAATATATGATATAATATTTTTAGCAAGAAGATGTAATCTACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGTATATGTATGGATAATTTTTTGATTAGCGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTATATGTATCAAAAAAGTAAAAAGCCACTCCGGCCAGAGTGACTTTAGTTTTGAACTAAAGATTAAGTTCAAAAAGAAACACTAATTTACGAACTCCACTCTAGTCTTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTAGAAAAAATATTGCCTATAATATTTTTATAGTCAATAAAAAGATGAAATTTTTTATACACAATGGTGATAAATCTAGCTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 2 16205-15849 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNI010000093.1 Clostridioides difficile strain HC31A NODE_241_length_34757_cov_50.341427, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 16204 29 93.1 37 ................G....G....... ATAGAAACACAAGCTTCTAAAGTTTTAGAAAATTTGA 16138 29 100.0 37 ............................. CTACTTTCATTTACTGTCCTTTTGACAGTTGTTTGAG 16072 29 93.1 36 ...............AG............ TTTGATGAAGCTTGTAACTCACTTGATGCTTTTTCT 16007 29 96.6 36 A............................ AGCAATTGTAAAACTAAAAGATGAAGCTAGTCCAAC 15942 29 86.2 38 A..............AGC........... CCCATAGAACCAACATATTTAAATGTTTCACCCATTAG 15875 27 79.3 0 A...............G...-.-.A...A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 91.4 37 GTTTTATATTAACTATATGGTATGTAAAG # Left flank : ATGGAGAATTAAGGGAAATAATAGCTGAAGATTCAATACTTAATTTTCATAGCCAAGAATTTATTGACAATATAAGGAGAAAAATAAATATAAGTAAGAATAATTTAGAAAATAATAAAGAAAAACAAATAAAATCAAATGATGATGCAATACAACAAGTGAAAGGGTTAAAAGAGTTATTAGACATGGGAGCAATAACAGAGGAAGAATTTAATAAGAAGAAAAAAGAATTATTGAATTTATAACAAGAGAAAATAAATAAGTATAAACATACAAAGCACTTGGATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATATAGGTAAGGCTTTAGCAGTGTTCAATTTTTTGAAATATTGCTTGTAGTGATTGAAATTACTATATTACAGGTATGTTTTATGAAATGCCAAAAAACACTACTGGTCGCTCACTGCAAATTTAAGAAAGCTATATATGTAAGTATTGGAAATACTAAATTTATTTTGGG # Right flank : ACTAAATAAACAAAGAAAGCACTTACCAACATGTAAGTGCTTTTGTTTTGCTCAAATTTGCTCAAAATGGTCAGTTGAGTAAAATAATTAGAAAAAATTGGAATAAGTTATTGACTTTTGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAAAAATAACAAAAATAGAGCATTCTCCCCGACCAAAGTTTGAATGCTCTATTTCCAACAAAGAAGTAATCTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATAACTTACAAATATTTAAAAATGA # Questionable array : NO Score: 3.74 # Score Detail : 1:0, 2:3, 3:0, 4:0.57, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGTATGTAAAG # 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:82.14%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-4] 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: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //