Array 1 2924-4003 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000002.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000002, 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 2 353078-354543 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000002.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 353078 29 100.0 37 ............................. TTTCTTTTTGAAGTTGTTGACGCTCTTTTTCATCAGC 353144 29 100.0 36 ............................. ACATCAAGACTATCTATATTATTAAGAGTAACTTTA 353209 29 100.0 34 ............................. CTAACTTGTTTCCCTCTAAAGCGTGTTTAGTAGG 353272 29 100.0 37 ............................. CTCTTTTGCGCAGAGTGGTTTTTTACTTGTCTAAATA 353338 29 100.0 37 ............................. TAAAGACCTTTTTTCATGTTGCACTCTAAAAATCTAA 353404 29 100.0 37 ............................. GATAAGGAATCTGAATATTAATAACACCAGAATCTCC 353470 29 100.0 36 ............................. CTACTAGCAGGAACATCAAAAGGAGGTTTAAAATCC 353535 29 100.0 39 ............................. ACCAAAAGGAATGTTTATTTTTGACTTTGCTTATCAATT 353603 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 353669 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 353733 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 353799 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAATCTGGTGTA 353864 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 353929 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 353996 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 354062 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 354128 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 354194 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 354259 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 354325 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 354390 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 354456 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [354514] 354514 29 69.0 0 AC..........TA...CAT.T.C..... | T [354520] ========== ====== ====== ====== ============================= ======================================= ================== 23 29 98.4 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATA # 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 : 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 3 405397-405556 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000002.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 405397 29 100.0 36 ............................. AGAAAAGTTTCCAGTAGGAATACCTAAGTATATTAA 405462 29 100.0 37 ............................. AGTTTTAACACCTGCCCTTTATAGATGGTGTATTTAC 405528 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 5000-3784 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000018.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000018, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 4999 29 100.0 37 ............................. AGAATTTAGTACTTTCTAAAAATGGATTGCCTAGCAA 4933 29 100.0 37 ............................. TTTCCTAATTCCCTATGGTGTAGCATTGGTTGATAGA 4867 29 100.0 37 ............................. ATATTAAAGATATGACACTCTTTTATATAAAATATAA 4801 29 100.0 38 ............................. ACAAGTTCAGTAGGGAGACAGACAGTAATTTTAAAAGA 4734 29 100.0 35 ............................. CACAACAATACAAATAAAACTCTGAAAAGGTAAAA 4670 29 100.0 37 ............................. TTATTATTATTATATATCTTGACTTAGCACTATTTTT 4604 29 100.0 38 ............................. ATTACTTTGAAAGCATTAACAGAAAAAGAGATTAGTAA 4537 29 100.0 37 ............................. TATTTACTGTTGAACCTACATCTTGATTGGATAAAAA 4471 29 100.0 37 ............................. TAAGGTTTTAATTTATTAGTAATAAATATAAGACCTA 4405 29 100.0 36 ............................. AATTCTTTGACTGCATCATTTAAATAATCTAGCTGA 4340 29 100.0 37 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCG 4274 29 100.0 37 ............................. CATATAATGAATTACATAACATCTTATGATATTCATC 4208 29 100.0 37 ............................. TTCATAGTCTTTAGAGTCTGTAAATACTTTACTCATA 4142 29 100.0 36 ............................. TTACTTTAAAATATGTACCATAAAAAAATATATCAA 4077 29 100.0 37 ............................. ATCTCTGGCGTATAACCTTCTTTTCCTATTAGTTCTG 4011 29 100.0 38 ............................. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 3944 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 3878 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 3812 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 19 29 98.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [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 185935-186293 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000003.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 185935 29 100.0 37 ............................. TGTTCCCCTCTAAGCTCTGTATATATATATTCCGTTT 186001 29 100.0 37 ............................. AAGTGTTGATATTTATATTGTCTATCCCCGCTAGCTT 186067 29 100.0 38 ............................. TCGTAAATTACGACCGTACCTTTCGTAAAATAACAATC 186134 29 100.0 37 ............................. CTTTTTGAGTATGAGTACAAGCATAGGAAAATTAATA 186200 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 186265 29 93.1 0 .........C..T................ | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 98.9 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTCAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTCTTGGAAATGCTCAATTTATTTTGGG # Right flank : GACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGCTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # 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 : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [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 2 394408-394768 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000003.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 394408 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 394473 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 394539 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 394605 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 394674 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 394740 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 6 29 93.7 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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: 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 [0-11] 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 525703-527369 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000001.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 525703 29 100.0 37 ............................. TGGAAAACTTGTCAAAAATAGCATCAAAGCATTTATA 525769 29 100.0 37 ............................. GGGGCTTTTGGGGACATGAGTGTTACAGATGCACTAA 525835 29 100.0 36 ............................. AGCCCCCTAATGCTGGAACAGTGAGGACACACAAAC 525900 29 100.0 40 ............................. GAACTTTTAAAAGATTATGCTAGGAAAATTCATGTTGCTG 525969 29 100.0 36 ............................. AAGCCAAAAGCTACGAATTTGAACTAAAATGCGTGG 526034 29 100.0 37 ............................. TGCCTAGGGAACCCCTCCAGCCCCTAACCATGCAACA 526100 29 100.0 37 ............................. AACAAGAAAAACCAACAACAAAACCAACAACAAAAAG 526166 29 100.0 36 ............................. CTTTCCATAAAATACCCCCTACTTCATTTTTATTTA 526231 29 100.0 37 ............................. AAGACCAAGCCACTTCCGCAATTGCATCTTCTAACAT 526297 29 100.0 36 ............................. AAATATTTTGTTGACTTATTTCAAACTTTAGAGGAC 526362 29 100.0 37 ............................. AGTGTATTTTTATCATTCTATCTACTATACCAAAAAA 526428 29 100.0 36 ............................. GCATACCTGTAACCTGCATCATTTTGTATCTATCTT 526493 29 100.0 36 ............................. AAAAGATTGTAATGAGTACGAGACAAGATTTATTGT 526558 29 100.0 36 ............................. TATATAAATTTTCTTTTTCTTCTATTTCTAAGTTCA 526623 29 100.0 37 ............................. GTTGTATAGCTAGTACTTCCTGCTTTAAATCCTTTTC 526689 29 100.0 37 ............................. AAGACAAGGTTCTTCTTTTAAGTGGCAAGCTATAAAA 526755 29 100.0 36 ............................. CGAGTAAAATAACAATTATCTGGAATGTGAGAAGTT 526820 29 100.0 37 ............................. TACACATAATTACAACCCAGTTTACTTTTTGCTACAC 526886 29 100.0 37 ............................. TATGAATATATTACATAATCATAAAGATTTACAAATG 526952 29 100.0 36 ............................. TCTCTAAATCCATCTATAACGTTACCAGCAAAATCA 527017 29 96.6 36 A............................ AAGAACTTTTCATGAACGTGGAAAATATTGAGTTCA 527082 29 100.0 36 ............................. TGCGCAATAACATGCTGAAAACTGCAATTTCGAAGT 527147 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGGCACAGTGTCAG 527213 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 527277 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 527341 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================== ================== 26 29 97.4 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACACAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [0-20] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-81.7]%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 102112-102669 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000005.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000005, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 102112 29 100.0 38 ............................. TTCATATTCCATGCATTCTGCTTACACTTAATAGAAAA 102179 29 100.0 37 ............................. TATTTCTAGCGACTTGGTCGGTTGCTCCATTTAGCTT 102245 29 100.0 37 ............................. TTTTTCAAATCTGATATATCGACCTTAAATTTCGTGG 102311 29 100.0 37 ............................. GATATAAACTTTGGGAGTTCAGAAGAAGGATTAAAAA 102377 29 100.0 37 ............................. TAGAGATGAACTCAGATAGAAAAACATGTAGATGTGT 102443 29 100.0 37 ............................. TCTTCAACAGTTGTGTTACCATCTCCTACACGCACAG 102509 29 100.0 37 ............................. TGCTACGTAACCAGTTTCACCGCTTTCAGTATATAAC 102575 29 100.0 37 ............................. TGTTGGTATAGTTTCAGAAAAGAAATTCGAAACACTT 102641 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCTATTTTATCTCTAAATATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCTCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAATAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAA # 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: 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 136771-135681 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOPJ01000007.1 Clostridioides difficile strain 5493-DH/ST42 5493_contig000007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 136770 29 100.0 38 ............................. TATTATTACTCATTATAGCTGTTTCTTTTCCAGCTTTA 136703 29 100.0 37 ............................. TTGAGTATCATGTGATGGTGTACTCTCTTAGTTCCAT 136637 29 100.0 37 ............................. TCCACTATATCCTTCTACTATACCTTGTAACCAAACC 136571 29 100.0 36 ............................. ACGCCAACACCTTTAACTATATTAGCCCCTATGATG 136506 29 100.0 37 ............................. TCGAAATCCCAACTGCAAGGCAAAATATCTTTAGAAT 136440 29 100.0 37 ............................. ATTTTTATGACCCCCTTTCGCTTATTTTAAATATCTA 136374 29 100.0 37 ............................. CCTCATTATTATATTTATAATATTATAATAATATCAT 136308 29 100.0 38 ............................. AAATTATGAGCTAAGGGAGAACCACAATAATAACAATG 136241 29 100.0 39 ............................. TATTCTATCTGCTTCGGGAACTCCTTTTAATAATTCTCC 136173 29 100.0 38 ............................. TTTTTAGATTGCACTTTAGTTTTCCAATTATCTTTCAT 136106 29 100.0 36 ............................. CTGCCACCCTTATGATAAATTACATTCAAAATCCTT 136041 29 100.0 38 ............................. GACCTACAAGGTGAGAAATACAACTTAGATATGTTTGA 135974 29 100.0 37 ............................. AGAAATTAATCTAAGCCTTTTTAATGGGGGATACATA 135908 29 100.0 37 ............................. GTTGGAATATGAACTCCTATTTCCTTTTCCATTCTTA 135842 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 135776 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 135709 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ======================================= ================== 17 29 99.2 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTAGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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], //