Array 1 2924-4003 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000017.1 Clostridioides difficile strain HC191 NODE_17_length_61666_cov_38.8049, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2924 29 100.0 36 ............................. ATTACATGGGTAAAAATTTTGATGATTTTTATGACA 2989 29 100.0 36 ............................. TGTATAGAATTAAGAATTTTTTTAATACTAATTATA 3054 29 100.0 36 ............................. ATTACATTTAATTTGCATTGCTTTGATGACTTCTTT 3119 29 100.0 36 ............................. ATTTTTCAATATCAATATAGAACTTTCATCTTTCCC 3184 29 100.0 37 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTT 3250 29 100.0 38 ............................. GAGGAGATTCAGACAGCGACTAAAAAGACTGATATAAA 3317 29 100.0 37 ............................. AACTTTATATCTCCATTTGCATATCCATCTGATGAAC 3383 29 100.0 38 ............................. GCGTACAAGGTTGAGAAGCTCCGCAATCTCAACGTCGT 3450 29 100.0 38 ............................. ATTTGAAAGGAATAAATTTTAAATGAATGAAAGGATAG 3517 29 100.0 36 ............................. CAGCCAAAAACTTCGAATTTGAACTAAAATGCGTGG 3582 29 100.0 38 ............................. TCTCATGACTATTGAATAAATATAATAAACAAGCATAC 3649 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 3714 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 3780 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 3845 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 3910 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 3975 29 82.8 0 ............T...G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 17 29 99.0 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGTTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCATATATCAATTATAGTATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 240486-239928 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000001.1 Clostridioides difficile strain HC191 NODE_1_length_486195_cov_48.7278, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 240485 29 100.0 38 ............................. TTCATATTCCATGCATTCTGCTTACACTTAATAGAAAA 240418 29 100.0 37 ............................. TATTTCTAGCGACTTGGTCGGTTGCTCCATTTAGCTT 240352 29 100.0 37 ............................. TTTTTCAAATCTGATATATCGACCTTAAATTTCGTGG 240286 29 100.0 37 ............................. GATATAAACTTTGGGAGTTCAGAAGAAGGATTAAAAA 240220 29 100.0 37 ............................. TAGAGATGAACTCAGATAGAAAAACATGTAGATGTGT 240154 29 100.0 37 ............................. TCTTCAACAGTTGTGTTACCATCTCCTACACGCACAG 240088 29 100.0 37 ............................. TGCTACGTAACCAGTTTCACCGCTTTCAGTATATAAC 240022 29 100.0 37 ............................. TGTTGGTATAGTTTCAGAAAAGAAATTCGAAACACTT 239956 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCTATTTTATCTCTAAATATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCTCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAATAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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:83.33%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: F [0-1] 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 [0.41,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 1260-110 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000022.1 Clostridioides difficile strain HC191 NODE_22_length_39513_cov_36.7982, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1259 29 100.0 37 ............................. AGAATTTAGTACTTTCTAAAAATGGATTGCCTAGCAA 1193 29 100.0 37 ............................. TTTCCTAATTCCCTATGGTGTAGCATTGGTTGATAGA 1127 29 100.0 37 ............................. ATATTAAAGATATGACACTCTTTTATATAAAATATAA 1061 29 100.0 38 ............................. ACAAGTTCAGTAGGGAGACAGACAGTAATTTTAAAAGA 994 29 100.0 35 ............................. CACAACAATACAAATAAAACTCTGAAAAGGTAAAA 930 29 100.0 37 ............................. TTATTATTATTATATATCTTGACTTAGCACTATTTTT 864 29 100.0 38 ............................. ATTACTTTGAAAGCATTAACAGAAAAAGAGATTAGTAA 797 29 100.0 37 ............................. TATTTACTGTTGAACCTACATCTTGATTGGATAAAAA 731 29 100.0 37 ............................. TAAGGTTTTAATTTATTAGTAATAAATATAAGACCTA 665 29 100.0 36 ............................. AATTCTTTGACTGCATCATTTAAATAATCTAGCTGA 600 29 100.0 37 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCG 534 29 100.0 37 ............................. TTCATAGTCTTTAGAGTCTGTAAATACTTTACTCATA 468 29 100.0 36 ............................. TTACTTTAAAATATGTACCATAAAAAAATATATCAA 403 29 100.0 37 ............................. ATCTCTGGCGTATAACCTTCTTTTCCTATTAGTTCTG 337 29 100.0 38 ............................. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 270 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 204 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 138 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACT # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [6-0] 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], // Array 1 91249-90888 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000002.1 Clostridioides difficile strain HC191 NODE_2_length_485463_cov_43.8249, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 91248 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 91183 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 91117 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 91051 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 90982 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90916 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 6 29 93.7 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 5.95 # Score Detail : 1:0, 2:3, 3:0, 4:0.69, 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 [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 299656-299363 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000002.1 Clostridioides difficile strain HC191 NODE_2_length_485463_cov_43.8249, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 299655 29 100.0 37 ............................. TGTTCCCCTCTAAGCTCTGTATATATATATTCCGTTT 299589 29 100.0 37 ............................. AAGTGTTGATATTTATATTGTCTATCCCCGCTAGCTT 299523 29 100.0 38 ............................. TCGTAAATTACGACCGTACCTTTCGTAAAATAACAATC 299456 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 299391 29 93.1 0 .........C..T................ | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTCAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTCTTGGAAATGCTCAATTTATTTTGGG # Right flank : ACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGCTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTGA # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 : 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 [2-0] 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 299228-300234 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000004.1 Clostridioides difficile strain HC191 NODE_4_length_458537_cov_48.4833, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 299228 29 100.0 37 ............................. TTTCTTTTTGAAGTTGTTGACGCTCTTTTTCATCAGC 299294 29 100.0 36 ............................. ACATCAAGACTATCTATATTATTAAGAGTAACTTTA 299359 29 100.0 34 ............................. CTAACTTGTTTCCCTCTAAAGCGTGTTTAGTAGG 299422 29 100.0 37 ............................. CTCTTTTGCGCAGAGTGGTTTTTTACTTGTCTAAATA 299488 29 100.0 37 ............................. TAAAGACCTTTTTTCATGTTGCACTCTAAAAATCTAA 299554 29 100.0 37 ............................. GATAAGGAATCTGAATATTAATAACACCAGAATCTCC 299620 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 299687 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 299753 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 299819 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 299885 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 299950 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 300016 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 300081 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 300147 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [300205] 300205 29 69.0 0 AC..........TA...CAT.T.C..... | T [300211] ========== ====== ====== ====== ============================= ====================================== ================== 16 29 97.6 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATA # 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: 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 [0-2] 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 2 351088-351247 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000004.1 Clostridioides difficile strain HC191 NODE_4_length_458537_cov_48.4833, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 351088 29 100.0 36 ............................. AGAAAAGTTTCCAGTAGGAATACCTAAGTATATTAA 351153 29 100.0 37 ............................. AGTTTTAACACCTGCCCTTTATAGATGGTGTATTTAC 351219 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # 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:70.97%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 255829-253964 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000005.1 Clostridioides difficile strain HC191 NODE_5_length_327963_cov_46.875, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 255828 29 100.0 37 ............................. TGGAAAACTTGTCAAAAATAGCATCAAAGCATTTATA 255762 29 100.0 37 ............................. GGGGCTTTTGGGGACATGAGTGTTACAGATGCACTAA 255696 29 100.0 36 ............................. AGCCCCCTAATGCTGGAACAGTGAGGACACACAAAC 255631 29 100.0 40 ............................. GAACTTTTAAAAGATTATGCTAGGAAAATTCATGTTGCTG 255562 29 100.0 36 ............................. AAGCCAAAAGCTACGAATTTGAACTAAAATGCGTGG 255497 29 100.0 37 ............................. TGCCTAGGGAACCCCTCCAGCCCCTAACCATGCAACA 255431 29 100.0 37 ............................. AACAAGAAAAACCAACAACAAAACCAACAACAAAAAG 255365 29 100.0 36 ............................. CTTTCCATAAAATACCCCCTACTTCATTTTTATTTA 255300 29 100.0 37 ............................. AAGACCAAGCCACTTCCGCAATTGCATCTTCTAACAT 255234 29 100.0 37 ............................. AGTGTATTTTTATCATTCTATCTACTATACCAAAAAA 255168 29 100.0 36 ............................. GCATACCTGTAACCTGCATCATTTTGTATCTATCTT 255103 29 100.0 36 ............................. AAAAGATTGTAATGAGTACGAGACAAGATTTATTGT 255038 29 100.0 36 ............................. TATATAAATTTTCTTTTTCTTCTATTTCTAAGTTCA 254973 29 100.0 37 ............................. GTTGTATAGCTAGTACTTCCTGCTTTAAATCCTTTTC 254907 29 100.0 37 ............................. AAGACAAGGTTCTTCTTTTAAGTGGCAAGCTATAAAA 254841 29 100.0 36 ............................. CGAGTAAAATAACAATTATCTGGAATGTGAGAAGTT 254776 29 100.0 37 ............................. TACACATAATTACAACCCAGTTTACTTTTTGCTACAC 254710 29 100.0 37 ............................. TATGAATATATTACATAATCATAAAGATTTACAAATG 254644 29 100.0 36 ............................. TCTCTAAATCCATCTATAACGTTACCAGCAAAATCA 254579 29 96.6 36 A............................ AAGAACTTTTCATGAACGTGGAAAATATTGAGTTCA 254514 29 100.0 37 ............................. TTGTCATTTACGACTACCATTTCTCTAGCATTTATAT 254448 29 100.0 37 ............................. GGGAAAATATGGGAAAAGTTAACTAATATAATGCAAA 254382 29 100.0 36 ............................. GAAATTTTTAGTGCTATTGCAACTACTCTTGTTTGT 254317 29 100.0 37 ............................. GCATAACCAAAAACTTCAAAATCAAGACCTCGAATTT 254251 29 100.0 36 ............................. TGCGCAATAACATGCTGAAAACTGCAATTTCGAAGT 254186 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGGCACAGTGTCAG 254120 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 254056 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 253992 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================== ================== 29 29 97.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACACAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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: 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 [20-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [81.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 142432-141872 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAXLQ010000007.1 Clostridioides difficile strain HC191 NODE_7_length_160243_cov_39.0187, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 142431 29 100.0 38 ............................. TATTATTACTCATTATAGCTGTTTCTTTTCCAGCTTTA 142364 29 100.0 37 ............................. TTGAGTATCATGTGATGGTGTACTCTCTTAGTTCCAT 142298 29 100.0 37 ............................. TCCACTATATCCTTCTACTATACCTTGTAACCAAACC 142232 29 100.0 38 ............................. GACCTACAAGGTGAGAAATACAACTTAGATATGTTTGA 142165 29 100.0 37 ............................. AGAAATTAATCTAAGCCTTTTTAATGGGGGATACATA 142099 29 100.0 37 ............................. GTTGGAATATGAACTCCTATTTCCTTTTCCATTCTTA 142033 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 141967 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 141900 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 98.5 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTAGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-71.7]%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], //