Array 1 62726-62170 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000012.1 Clostridioides difficile strain JV01 012 JV01_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 62725 29 100.0 37 ............................. TATCTATTATTGGTATATTAAATGATTCTAATAATTC 62659 29 100.0 36 ............................. ATGTTCACATTGACAGCTCAAGATAAACATGGAATT 62594 29 100.0 37 ............................. TTAAATCGTTTGATTGGAAGTATAAATTATAATGACC 62528 29 100.0 37 ............................. GCTGAAAGTTTAAAAGTTTTAACTATAAATTCAGTTG 62462 29 100.0 36 ............................. TCTTTTTCTAATGCTTTTTTTACATATGGAGCTAAC 62397 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 62332 29 100.0 37 ............................. AGGAGATAACTTCTATTAAAGATAACTTTGATGTGGT 62266 29 100.0 39 ............................. CTCAAAGTTGGACTAGCTTCATCTTTTAATTTTACAAGT 62198 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 9 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTTTTTAAGGTGTTATTTTATGATTATATAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAATATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [86.7-71.7]%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], // Array 1 3518-4506 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000032.1 Clostridioides difficile strain JV01 012 JV01_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3518 29 100.0 38 ............................. CTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAG 3585 29 100.0 37 ............................. TAATCTGACACATACAAAGTTGAACCTAGTGGTACGG 3651 29 100.0 37 ............................. AAAAGCGTTCTTAAATCGTTACTTAACTCTTGCAAAT 3717 29 100.0 36 ............................. TGGTATATCATACTCGTGCATTGCCTGCTCCACATT 3782 29 100.0 37 ............................. ATACAACCATATATTTACCAATTATGTACTTATGAAG 3848 29 100.0 36 ............................. TTTTTTAACTTTTCAGTTCTCACAGGCGTTTCATCT 3913 29 100.0 36 ............................. TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA 3978 29 100.0 38 ............................. AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC 4045 29 100.0 11 ............................. TANNCTTCCGA Deletion [4085] 4085 29 93.1 37 TC........................... TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA 4151 29 100.0 35 ............................. TGAACTTTAATCGGTTTTATACAACAATATAACGC 4215 29 100.0 37 ............................. TCACACATGAGCAATATCGAAACAGGCAAATCTACAG 4281 29 100.0 36 ............................. TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT 4346 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 4412 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 4478 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 99.4 35 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.11, 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [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 64740-66015 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000004.1 Clostridioides difficile strain JV01 012 JV01_contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 64740 29 100.0 37 ............................. TTAGCTTCATAGCTTATTTTCTTTATTACTTCAATTT 64806 29 100.0 37 ............................. AAGGTTTGACCTGCGTTTTTATATGCATCTGAATAAC 64872 29 100.0 37 ............................. CGAGTTGGCATCCAAGCATTTTTCACAGATTTTAATA 64938 29 100.0 37 ............................. ACGATATTTTTATATTCTATTGTTGTTATCTTATTCT 65004 29 100.0 37 ............................. AGGTATACACCTTCTACTCTTGTAAGAGTACCATAAG 65070 29 100.0 36 ............................. TCAAAATTATTTAGTTATACTAAACATTATATTATA 65135 29 100.0 38 ............................. TGAAACAAAATGCTGATGCAAGAAAAGAAAGTATCCGT 65202 29 100.0 36 ............................. CGAATTTCATGGCTTTGAATTTATTTATATGTAGTT 65267 29 100.0 37 ............................. CCAATTAAGTTACTAGATAAAAAAATAGAACAAATTA 65333 29 100.0 37 ............................. ACAAAAAAACGTATAATAAAAATAATTTCTATCTCTG 65399 29 100.0 36 ............................. CATATTCTTCATTTATCCCTATTCTATCTAATATTT 65464 29 100.0 37 ............................. TTTAAAAGGTCAACTTAAAGGTAGTAATTTTTTAATA 65530 29 100.0 37 ............................. TATCAAAAAATCCCCTCACCTGCATACTTATATAAAT 65596 29 100.0 37 ............................. CAAAGTGCTAGGTCACTAAATGATGCAACAGTAGACG 65662 29 100.0 36 ............................. CCTGTATTCTGTTTAATGCTTCAATAGCTCTTTCTT 65727 29 100.0 36 ............................. TATCTAAAACCCAATAGGATTGACACGTTACGACCG 65792 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 65858 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 65923 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 65987 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 20 29 96.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGATTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAGTATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 45675-46035 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000008.1 Clostridioides difficile strain JV01 012 JV01_contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 45675 29 100.0 36 ............................. AAAGGTGTCCATTGATTTCTTTCAGTTTCGGGAATA 45740 29 100.0 37 ............................. TGTTTTCCATAAACATTTCTAATTGACTTTTATTGTT 45806 29 100.0 37 ............................. TATCCTTGTATTTGCCTAACGCGATATAGAGCAAAAA 45872 29 100.0 38 ............................. TTGTTTAGGTCAAGTCTAATTTGACGTATTAAAGTATA 45939 29 100.0 39 ............................. CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 46007 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 6 29 100.0 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGCAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 16566-15769 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000007.1 Clostridioides difficile strain JV01 012 JV01_contig_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================================================================================================================ ================== 16565 29 100.0 37 ............................. GTAGAGTCTTTATATGGTAGAGGTGGAATATATAAGT 16499 29 100.0 38 ............................. AACTCTTCAATATCTCCTAATCGTTCAATATAATTCTC 16432 29 100.0 37 ............................. ACTGTATGCCATCTAAATGCATCATACAAACTTATTT 16366 29 100.0 37 ............................. TATACTTCCTAATGCAATCAAATAAGTACCTAAAATC 16300 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 16234 29 89.7 37 ......T.........G...T........ AATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG 16168 29 93.1 144 ................G...T........ GATAAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAGAAAAGAAAGAGAATAAATAATATAGATAAAGCACTTGGATATTGTATAGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATAGAGATAA 15995 29 75.9 37 .AG...T........AG...T.......G GTTTGAGAACGCTGTATAAAGCTTGTAGCTAGTTCTT 15929 29 82.8 37 ......T........AG...T.......G GTTGCATCATTAAATATTTTCCCTACAAACTCTTTTC 15863 29 86.2 37 A.....T.........G...T........ AGTACATACAAAGAGTCTATAAAATTATCTATAAAGG 15797 29 82.8 0 ......T.........G....C.TA.... | ========== ====== ====== ====== ============================= ================================================================================================================================================ ================== 11 29 91.9 48 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAATTGGAATACAAGGTATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGATATTGGAAATACTAAGTTTATTTTGGG # Right flank : TAAAAATAATTCAAAAACACTTACAAATGAGTAAGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACTAATATAGTATAATATTGTTAAAGAATATAATTTAGGGGGATATTATATTATGAAGAAAAAAGTATGTTTTTTATTTTCTATTCTTATAGTTATCTGTTTAGCTATTGTAGGATGTTCTAATTCAGAAAGTCCAGAGGAGAGTAGTAAAAATAATGAACCAAAAAAAGAAGAAAAAAAGGATAAAGAAGTAGTCATAGGAGAGAAAATTATTTCAGATAAAATGGAAATCACTATTAATAATATTGAATTCTCTTATGATGTTTTACCAAAGGTTAAGGAAAGTTTATATACACATTATCCTGCTGAGTCAGGCAAAGTATATATTGATATTGCTGCTGATATAAAAAATACTCAAAAACAAGAGTTAAATTGTTCAGATTTACTAACTATTGAAGCAAATTATAATGATGGGTATAAATA # Questionable array : NO Score: 4.58 # Score Detail : 1:0, 2:3, 3:0, 4:0.60, 5:0, 6:0.25, 7:-1.06, 8:1, 9:0.79, # 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 [21-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-66.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 122095-122853 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000009.1 Clostridioides difficile strain JV01 012 JV01_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 122095 29 100.0 37 ............................. TAAAACCACTCAATTCTTAAAAGATACTGCAATTATT 122161 29 100.0 37 ............................. GGACATTTAAAAGTTAACAACATAAAAATGATAGATA 122227 29 100.0 38 ............................. TGGTGAACAATAAAACAATCATCTAAAGACGAAGAAAA 122294 29 100.0 39 ............................. ATAATCCAGAAGATGATACACTTCTTGAACAATATATTG 122362 29 100.0 38 ............................. CTATCAATATATATTTTATAAGCATAAGTTTTACGCAT 122429 29 100.0 37 ............................. AACAACGTCATATATATCATCTTTAGTTGTAAGAGCA 122495 29 100.0 38 ............................. AGTTATGTCAAATTATTAGAAACTAAAAACCTAGTTGG 122562 29 100.0 37 ............................. AATATCTAAAAAAAACGACTTATATCCCATTTCTACA 122628 29 100.0 37 ............................. AATTTAGAAAAGGACTATTAGGAAGCAAAGAAAAAAT 122694 29 100.0 36 ............................. AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC 122759 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 122825 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 12 29 97.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTGTTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCGCTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTTTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTATATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # 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 : 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 102523-102362 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000013.1 Clostridioides difficile strain JV01 012 JV01_contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 102522 29 100.0 37 ............................. TTACTAAACATCTTATAACTTCTCTGAGAGCCTCTAG 102456 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 102390 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGGAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCAATATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGA # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAAAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # 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 [75.0-70.0]%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 3070-4021 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000017.1 Clostridioides difficile strain JV01 012 JV01_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3070 29 100.0 37 ............................. CTCCTTTCATTTCTCCTTTAGCTTCATAGCTTATTTT 3136 29 100.0 36 ............................. CTTTTTCCGAAAAACCATTACTTACAAAATCTACAA 3201 29 100.0 38 ............................. AACGTACAAAATGTAGCTATTATCATCTTTTAGATAGT 3268 29 100.0 38 ............................. GAGGAGATTCAGACAGCGACTAAAAAGACTGATATAAA 3335 29 100.0 37 ............................. AACTTTATATCTCCATTTGCATATCCATCTGATGAAC 3401 29 100.0 38 ............................. GCGTACAAGGTTGAGAAGCTCCGCAATCTCAACGTCGT 3468 29 100.0 38 ............................. ATTTGAAAGGAATAAATTTTAAATGAATGAAAGGATAG 3535 29 100.0 36 ............................. CAGCCAAAAACTTCGAATTTGAACTAAAATGCGTGG 3600 29 100.0 38 ............................. TCTCATGACTATTGAATAAATATAATAAACAAGCATAC 3667 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 3733 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 3798 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 3863 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 3928 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 3993 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 99.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 61069-60185 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAGIXC010000018.1 Clostridioides difficile strain JV01 012 JV01_contig_19, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 61068 29 100.0 37 ............................. AAGCTTTCATAGCATCCTCTTCTGAACATTCATCACT 61002 29 100.0 37 ............................. TAGTAAGTTAACTCATACATACCACCTTCCCCATAAA 60936 29 100.0 38 ............................. TATTATAAATCTTTAAATAGCCTTCTAAGCGTCTACTA 60869 29 100.0 36 ............................. ACATTATCAACATCATCTAATTTTTTTGTCACTGTA 60804 29 100.0 37 ............................. TAAGAATTAACTAATGTGAATTTTTTAGACATGTCAT 60738 29 100.0 38 ............................. ACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATA 60671 29 100.0 37 ............................. TAACAAAATTTGCGAGTACACTTATTTCTAATATATC 60605 29 100.0 36 ............................. ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAA 60540 29 100.0 36 ............................. TGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTA 60475 29 100.0 36 ............................. CGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTA 60410 29 100.0 37 ............................. TTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTA 60344 29 100.0 37 ............................. AAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATT 60278 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 60213 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTATTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATCCTTTGATTTACA # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: NA [73.3-70.0]%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], //