Array 1 822356-822189 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 822355 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 822288 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 822221 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAACAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGTCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : CAGATAAATTACTTATAAGATTACATACAACCCTCATACTCTAGTTAAATATTTGAATCACTAATATAAATTAGTTTTTAACAAAACAAAGAGTAAAGTACAAATAATTCCTTTGTACTCTACTCTTTTTAACTTTCTTTGTACAATAATACAATGATAAATATAAAAAATTATATATTCCATTCTATAGAAATATGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCGGTTCATATACAAAGTCAATTTCATTGAGAAATATTTAATATATGCTTATAAAAATTTCATACTATTCTTTCATATTTACATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGATTGTAGATTATTTATATAATCTAATATTTTTAGAAGGTGGTGTAATAACTT # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : CTACAATTTGATTAGGATATTATCTTAATTTGT # 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:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.78 Confidence: HIGH] # Array family : NA // Array 2 1529739-1530363 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 1529739 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 1529804 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 1529870 29 100.0 35 ............................. CCTATATTACTTAAATTATTACTTAAATACTGATA 1529934 29 96.6 37 ............G................ TATAAAACTTCTTGCATCTCTGCATTAAAAAAAGACT 1530000 29 100.0 38 ............................. ATAAGGAAGAAGAATAAAAAGGGGATGTTTTTATGGAA 1530067 29 100.0 38 ............................. TTATTATTATAATGGTCATGTATATCAAGTTTAGTAGC 1530134 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 1530200 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 1530269 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 1530335 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 95.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 3 1640621-1641443 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1640621 29 100.0 38 ............................. TATTATTACTCATTATAGCTGTTTCTTTTCCAGCTTTA 1640688 29 100.0 37 ............................. TTGAGTATCATGTGATGGTGTACTCTCTTAGTTCCAT 1640754 29 100.0 37 ............................. TCCACTATATCCTTCTACTATACCTTGTAACCAAACC 1640820 29 100.0 36 ............................. ACGCCAACACCTTTAACTATATTAGCCCCTATGATG 1640885 29 100.0 37 ............................. TCGAAATCCCAACTGCAAGGCAAAATATCTTTAGAAT 1640951 29 100.0 37 ............................. ATTTTTATGACCCCCTTTCGCTTATTTTAAATATCTA 1641017 29 100.0 37 ............................. CCTCATTATTATATTTATAATATTATAATAATATCAT 1641083 29 100.0 38 ............................. GACCTACAAGGTGAGAAATACAACTTAGATATGTTTGA 1641150 29 100.0 37 ............................. AGAAATTAATCTAAGCCTTTTTAATGGGGGATACATA 1641216 29 100.0 37 ............................. GTTGGAATATGAACTCCTATTTCCTTTTCCATTCTTA 1641282 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 1641348 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 1641415 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.9 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACTATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTAGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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 : 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [71.7-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 1816846-1817995 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1816846 29 100.0 37 ............................. TTTCCTAATTCCCTATGGTGTAGCATTGGTTGATAGA 1816912 29 100.0 37 ............................. ATATTAAAGATATGACACTCTTTTATATAAAATATAA 1816978 29 100.0 38 ............................. ACAAGTTCAGTAGGGAGACAGACAGTAATTTTAAAAGA 1817045 29 100.0 35 ............................. CACAACAATACAAATAAAACTCTGAAAAGGTAAAA 1817109 29 100.0 37 ............................. TTATTATTATTATATATCTTGACTTAGCACTATTTTT 1817175 29 100.0 38 ............................. ATTACTTTGAAAGCATTAACAGAAAAAGAGATTAGTAA 1817242 29 100.0 37 ............................. TATTTACTGTTGAACCTACATCTTGATTGGATAAAAA 1817308 29 100.0 37 ............................. TAAGGTTTTAATTTATTAGTAATAAATATAAGACCTA 1817374 29 100.0 36 ............................. AATTCTTTGACTGCATCATTTAAATAATCTAGCTGA 1817439 29 100.0 37 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCG 1817505 29 100.0 37 ............................. CATATAATGAATTACATAACATCTTATGATATTCATC 1817571 29 100.0 37 ............................. TTCATAGTCTTTAGAGTCTGTAAATACTTTACTCATA 1817637 29 100.0 36 ............................. TTACTTTAAAATATGTACCATAAAAAAATATATCAA 1817702 29 100.0 37 ............................. ATCTCTGGCGTATAACCTTCTTTTCCTATTAGTTCTG 1817768 29 100.0 38 ............................. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 1817835 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 1817901 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 1817967 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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: 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 [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 5 2136026-2135866 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 2136025 29 100.0 36 ............................. AGAAAAGTTTCCAGTAGGAATACCTAAGTATATTAA 2135960 29 100.0 37 ............................. AGTTTTAACACCTGCCCTTTATAGATGGTGTATTTAC 2135894 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 6 2188345-2186879 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 2188344 29 100.0 37 ............................. TTTCTTTTTGAAGTTGTTGACGCTCTTTTTCATCAGC 2188278 29 100.0 36 ............................. ACATCAAGACTATCTATATTATTAAGAGTAACTTTA 2188213 29 100.0 34 ............................. CTAACTTGTTTCCCTCTAAAGCGTGTTTAGTAGG 2188150 29 100.0 37 ............................. CTCTTTTGCGCAGAGTGGTTTTTTACTTGTCTAAATA 2188084 29 100.0 37 ............................. TAAAGACCTTTTTTCATGTTGCACTCTAAAAATCTAA 2188018 29 100.0 37 ............................. GATAAGGAATCTGAATATTAATAACACCAGAATCTCC 2187952 29 100.0 36 ............................. CTACTAGCAGGAACATCAAAAGGAGGTTTAAAATCC 2187887 29 100.0 39 ............................. ACCAAAAGGAATGTTTATTTTTGACTTTGCTTATCAATT 2187819 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 2187753 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 2187689 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 2187623 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAATCTGGTGTA 2187558 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 2187493 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 2187426 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 2187360 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 2187294 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 2187228 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 2187163 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 2187097 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 2187032 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 2186966 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [2186909] 2186908 29 69.0 0 AC........T.A....CAT.T.C..... | A [2186893] ========== ====== ====== ====== ============================= ======================================= ================== 23 29 98.4 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-73.3]%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], // Array 7 2538434-2537419 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2538433 29 100.0 36 ............................. TGTATAGAATTAAGAATTTTTTTAATACTAATTATA 2538368 29 100.0 36 ............................. ATTACATTTAATTTGCATTGCTTTGATGACTTCTTT 2538303 29 100.0 36 ............................. ATTTTTCAATATCAATATAGAACTTTCATCTTTCCC 2538238 29 100.0 37 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTT 2538172 29 100.0 38 ............................. GAGGAGATTCAGACAGCGACTAAAAAGACTGATATAAA 2538105 29 100.0 37 ............................. AACTTTATATCTCCATTTGCATATCCATCTGATGAAC 2538039 29 100.0 38 ............................. GCGTACAAGGTTGAGAAGCTCCGCAATCTCAACGTCGT 2537972 29 100.0 38 ............................. ATTTGAAAGGAATAAATTTTAAATGAATGAAAGGATAG 2537905 29 100.0 36 ............................. CAGCCAAAAACTTCGAATTTGAACTAAAATGCGTGG 2537840 29 100.0 38 ............................. TCTCATGACTATTGAATAAATATAATAAACAAGCATAC 2537773 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 2537708 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 2537642 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 2537577 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 2537512 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 2537447 29 82.8 0 ............T...G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 98.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGTTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCATATATCAATTATAGTATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 8 2782102-2781544 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2782101 29 100.0 38 ............................. TTCATATTCCATGCATTCTGCTTACACTTAATAGAAAA 2782034 29 100.0 37 ............................. TATTTCTAGCGACTTGGTCGGTTGCTCCATTTAGCTT 2781968 29 100.0 37 ............................. TTTTTCAAATCTGATATATCGACCTTAAATTTCGTGG 2781902 29 100.0 37 ............................. GATATAAACTTTGGGAGTTCAGAAGAAGGATTAAAAA 2781836 29 100.0 37 ............................. TAGAGATGAACTCAGATAGAAAAACATGTAGATGTGT 2781770 29 100.0 37 ............................. TCTTCAACAGTTGTGTTACCATCTCCTACACGCACAG 2781704 29 100.0 37 ............................. TGCTACGTAACCAGTTTCACCGCTTTCAGTATATAAC 2781638 29 100.0 37 ............................. TGTTGGTATAGTTTCAGAAAAGAAATTCGAAACACTT 2781572 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 9 3287077-3285212 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037821.1 Clostridioides difficile strain Cd12 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 3287076 29 100.0 37 ............................. TGGAAAACTTGTCAAAAATAGCATCAAAGCATTTATA 3287010 29 100.0 37 ............................. GGGGCTTTTGGGGACATGAGTGTTACAGATGCACTAA 3286944 29 100.0 36 ............................. AGCCCCCTAATGCTGGAACAGTGAGGACACACAAAC 3286879 29 100.0 40 ............................. GAACTTTTAAAAGATTATGCTAGGAAAATTCATGTTGCTG 3286810 29 100.0 36 ............................. AAGCCAAAAGCTACGAATTTGAACTAAAATGCGTGG 3286745 29 100.0 37 ............................. TGCCTAGGGAACCCCTCCAGCCCCTAACCATGCAACA 3286679 29 100.0 37 ............................. AACAAGAAAAACCAACAACAAAACCAACAACAAAAAG 3286613 29 100.0 36 ............................. CTTTCCATAAAATACCCCCTACTTCATTTTTATTTA 3286548 29 100.0 37 ............................. AAGACCAAGCCACTTCCGCAATTGCATCTTCTAACAT 3286482 29 100.0 36 ............................. AAATATTTTGTTGACTTATTTCAAACTTTAGAGGAC 3286417 29 100.0 37 ............................. AGTGTATTTTTATCATTCTATCTACTATACCAAAAAA 3286351 29 100.0 36 ............................. GCATACCTGTAACCTGCATCATTTTGTATCTATCTT 3286286 29 100.0 36 ............................. AAAAGATTGTAATGAGTACGAGACAAGATTTATTGT 3286221 29 100.0 37 ............................. GTTGTATAGCTAGTACTTCCTGCTTTAAATCCTTTTC 3286155 29 100.0 37 ............................. AAGACAAGGTTCTTCTTTTAAGTGGCAAGCTATAAAA 3286089 29 100.0 36 ............................. CGAGTAAAATAACAATTATCTGGAATGTGAGAAGTT 3286024 29 100.0 37 ............................. TACACATAATTACAACCCAGTTTACTTTTTGCTACAC 3285958 29 100.0 37 ............................. TATGAATATATTACATAATCATAAAGATTTACAAATG 3285892 29 100.0 36 ............................. TCTCTAAATCCATCTATAACGTTACCAGCAAAATCA 3285827 29 96.6 36 A............................ AAGAACTTTTCATGAACGTGGAAAATATTGAGTTCA 3285762 29 100.0 37 ............................. TTGTCATTTACGACTACCATTTCTCTAGCATTTATAT 3285696 29 100.0 37 ............................. GGGAAAATATGGGAAAAGTTAACTAATATAATGCAAA 3285630 29 100.0 36 ............................. GAAATTTTTAGTGCTATTGCAACTACTCTTGTTTGT 3285565 29 100.0 37 ............................. GCATAACCAAAAACTTCAAAATCAAGACCTCGAATTT 3285499 29 100.0 36 ............................. TGCGCAATAACATGCTGAAAACTGCAATTTCGAAGT 3285434 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGGCACAGTGTCAG 3285368 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 3285304 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 3285240 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], //