Array 1 275519-275099 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000002.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 275518 29 100.0 36 ............................. TAGAAATACAATTCGGAACTTGTTTCTGTTGAATTT 275453 29 100.0 37 ............................. AGGTTTAAAAACCTCTGTTCTTCCACCATAATACCCA 275387 29 100.0 36 ............................. AATATAATTATAACACAGGAGTTCCTTAAATGAAAA 275322 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 275256 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 275191 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 275127 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 91.1 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGATTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # Questionable array : NO Score: 5.81 # Score Detail : 1:0, 2:3, 3:0, 4:0.55, 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 [14-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 138081-139031 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000005.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 138081 29 100.0 38 ............................. TAAACGAAATTAAAAATCTAATTGATAGTATTACAAGA 138148 29 100.0 36 ............................. CAAGTGGGCGAAAGATGATTATATACCAGAATCACT 138213 29 100.0 37 ............................. AAAACTGAATAATGCAGGTGAAAAGTTCTTAACAGAG 138279 29 100.0 36 ............................. AAAGCACTAACAGGTACTGATGATATATTAGCGAAA 138344 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 138410 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 138476 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 138542 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 138609 29 100.0 38 ............................. CAGCTTTACATATCTATCTATGATTTTTGAATCTCCAT 138676 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 138741 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 138807 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 138872 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 138938 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 139003 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 98.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATGATATAATAATTGTAGCAAGGAAAATAAAATTGAAAAGCTAAGGGTGATTTTCTCATATAAACGCCAAATTCCAATATAGGAAGGAGGTGAATTTATATGTTAATTAACTTTTTATTGAGTATAGTAGCTGGAATTGTTTCAGCTTACATTTACGAGAAAATAAAAAATCACCCAAACGCCAATAAGGGTGATTTAAAGAAATAACTTTTAAATTCTAATCAATTAGAGAAATTCACCTTTTACAAAGTAAATTTTATCTCCTTGCTATTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTGATAAAATATGGCCTAACACTTGAAATATAATGTATTGAGGACGTATGATAAGTATTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAAACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTAGTAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAGAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAAAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGTTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAGTATACGTCATTCCTTAAAA # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 1 640490-641302 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000001.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 640490 29 100.0 36 ............................. GAAATTAGTTGAACTATTGCTTGATATTCCATATAC 640555 29 100.0 37 ............................. CAATAAACCCAAAAACATTTAAAGAATACATGTTTAA 640621 29 100.0 36 ............................. TGCTTACGAATGGTTGGAATTACATCTATTGCTAAC 640686 29 100.0 38 ............................. CAATATGATTTTGCATTAGATTTTAGTGAAGGATTAGC 640753 29 100.0 35 ............................. TTTCTTTAAAACAGACATCAATTTCGTTATATCTG 640817 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 640882 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 640948 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 641014 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 641079 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 641144 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 641209 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 641274 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.9 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAGCGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 2 1013963-1014253 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000001.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1013963 29 100.0 36 ............................. CATAAGCACTCAAAGGATTTGAAATATAAGAATAGG 1014028 29 100.0 37 ............................. AGTATTCCTTCTATTAAATTAGATTGGACTCCAATTA 1014094 29 100.0 36 ............................. TCATAAATATTCATTTTTTCTCTCCTTATTATTAAA 1014159 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 1014225 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 99.3 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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:72.41%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 [0-1] 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 [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 27728-29065 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000013.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 27728 29 100.0 38 ............................. AGATATTTCTTAATAATTGATTGCCTACACTCCTTCCA 27795 29 100.0 35 ............................. GCTACTAGACCAGCTACCACTAACAGTACGAATGA 27859 29 100.0 36 ............................. ATAGTATAAACACTTTCAACCGTCCTTGAAAGTGTT 27924 29 100.0 37 ............................. TTACTTAGAAACAAATATATTGTTATTAACATACCAA 27990 29 100.0 38 ............................. TTAAGAGCATCTTCTATACCTATTTTAAAGTTTACTGG 28057 29 100.0 37 ............................. TTGCTATCTGAGTATTAATTTCTTCTATTTCTTGCCT 28123 29 100.0 37 ............................. ATTATAATATGTAACTATATCTAACTTTTATATTATC 28189 29 100.0 37 ............................. GTATGTCTTTTAAAGTTGCTAATACAACTGTTGGGTC 28255 29 100.0 36 ............................. TGAATATCACTACACCAAATTTTTAGACATTCAAAC 28320 29 100.0 37 ............................. TAATTAGTGGTGTTATAAGACTCATTTTTTGATTTTA 28386 29 100.0 37 ............................. TTGACTTACTATGTATTACTTCTAAGTTACTTATATC 28452 29 100.0 38 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTTT 28519 29 100.0 36 ............................. AAAAATAGAACAAATTATGGAAAAATACTAGTAAAT 28584 29 100.0 37 ............................. TCTCATCACAACACTATATACATAGTAAATTAACATA 28650 29 100.0 35 ............................. GCATGTTAAAGTGGCTAATTGGAACTATGATTACA 28714 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 28775 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 28840 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 28905 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 28971 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 29037 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 21 29 99.5 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-3] 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 1 119106-119995 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000007.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 119106 29 100.0 38 ............................. AAAAAAGTCTCAATAACACCAGTCGAAGCAGAAAAATC 119173 29 100.0 36 ............................. CATTGTCAACATCATCTAATTTTTTTGTTACTGTAA 119238 29 100.0 37 ............................. TAGATTTTTTCACAAATAAACTTAACGAGTACAATGA 119304 29 100.0 39 ............................. TAGTTTTAAACTTTTTTTCTGGACATATTACAACATCAA 119372 29 100.0 37 ............................. TATCTTTAGCATTATATTTTTTAGTATCAGATGTGTG 119438 29 100.0 38 ............................. ATCTTTTAATTTTTATAACTAACTATTTACAAATTCAA 119505 29 100.0 38 ............................. TCTATCCACCCCCTTTTTTATAAATTTGCATTAAAAAA 119572 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 119638 29 100.0 38 ............................. AATAATGTTGATAAGACAGCAGAGGAAATAAAAGCTAG 119705 29 100.0 36 ............................. GTTATAGTCTTTTGGATAACTACCCAATTAGGATTT 119770 29 100.0 37 ............................. AAAAATATTATAGATACAAAAAAAGATTCAGAAAACA 119836 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 119901 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 119967 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 14 29 97.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTATGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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: R [63.3-75.0]%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 1 147537-145927 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000008.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 147536 29 100.0 37 ............................. CCAACTAGGTGAAAGAAGCTTACCCAAAAGTATCACC 147470 29 100.0 38 ............................. TAATTAATGGTGTTATTAAGTCAAATTTTTGATTTTGC 147403 29 100.0 36 ............................. AAACTCAAAACTTTTTTATTATAGGTATTGATTTTT 147338 29 100.0 37 ............................. TAAATATTCATTTCAAGCTCTTTCATAAGCTCATATT 147272 29 100.0 38 ............................. GTAAGTCACTCTTTGCACGAGAGTGGCTTTTTGCTTTT 147205 29 100.0 36 ............................. TTAGACGAGATTGTTTTTATAGATACAGGACTAGAA 147140 29 100.0 36 ............................. GTTTTGAACGGGTATGACTAGTTTAGTTTCGTCAAG 147075 29 100.0 37 ............................. AAATAACAATTATTAGGAATTTGAGAAGTATTATGTG 147009 29 100.0 36 ............................. AATCACGAAAGTATTAACTACTTCTCGAACAGGCAA 146944 29 100.0 37 ............................. TTACTAACAGGAACATCAAAAGGAGGTTTAAAATCCG 146878 29 100.0 38 ............................. TCCCACACGTATAAATCAATTTGGTTTTCTGCTGTCGT 146811 29 100.0 37 ............................. TGCAAAAAAATCGGATAACCTAGTTCCTCTACAACTT 146745 29 100.0 37 ............................. ACGAGTCTAATATATTTTCGCTTCTTTTATTATTCTG 146679 29 100.0 37 ............................. TTTTTAAAGAATAGGTCACTAAAAAATTTTAATTTTG 146613 29 100.0 37 ............................. TGTGGATTTAAAGATGGAATAGTAACAAAGTATATTA 146547 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 146481 29 100.0 37 ............................. CTATAACTTTTTCGCCAAAAACGTCTTTTATATCATT 146415 29 100.0 37 ............................. TCCAAAAGAACCTCTTTTTCTGTTTCATCAACTGTGT 146349 29 100.0 36 ............................. TTCTTTGAAAAGCATACTTTCTTTATTCTATCTTTA 146284 29 100.0 37 ............................. ATCGTAAATTTTTGTATAGGAGTCATACTTATAAGAG 146218 29 100.0 37 ............................. CAAAATGATTTGAAAATAACAAATATGTCTTTATTAA 146152 29 96.6 36 ............T................ TATAAATAAATAAACAGAAACAAAAATCAAATCTTT 146087 29 100.0 36 ............................. ATCATAAGAACCAGGGATATAGGGAAGGTCATAAGC 146022 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 145955 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 25 29 99.2 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTTATGATGGGAATGG # 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-70.0]%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 1 189924-190280 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000004.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 189924 29 100.0 36 ............................. AACCTGTCATACCTGCTATAAAAACATGTTCGTCAG 189989 29 100.0 36 ............................. TTGATGAACTAAAAGAAAAAAAAGAACAGTATGTAA 190054 29 100.0 37 ............................. AATCGTTCAATATAATTCTCTGCAAATTCAATATCTG 190120 29 100.0 37 ............................. TGACTCACTGCACAAGGTACATTTTCTGCAATTATTA 190186 29 100.0 37 ............................. ATAGCACCACCTAATCCACTTTTAATTATAGATTCAT 190252 29 96.6 0 ............................G | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 99.4 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTCAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAAGCATTGAAATGTAAGGTATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGCGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGAG # Right flank : GGAAGCTAATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGCGAATTTAAGATTGCAAAGGAAATGAAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTTTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTACTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGTCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTGTGGAAATTTGTGGTAGAATGTAGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-65.0]%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 212555-213509 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUTZ01000004.1 Clostridioides difficile strain CD39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 212555 29 100.0 38 ............................. TCATTTTGACTGTCAACGGTAGTTGGTCTAGTAGCTGG 212622 29 100.0 37 ............................. CCCCCACCACTTCCACCACTTTGAGAAGTTCCAACTG 212688 29 100.0 36 ............................. TCAAAGCCATGAGGTTTTTCACCTACACCGCTTTTT 212753 29 100.0 37 ............................. ACTACTGACATTAGTTAAGTAAATAGTAATCTTTTAA 212819 29 100.0 37 ............................. CTGATTTAAAGAATACATTTAAACTTTCTGGCATATC 212885 29 100.0 37 ............................. TTTCTTAGTGCTTCATCACTCTTTAATAAACATTTAG 212951 29 100.0 38 ............................. TAATGTCAACGAATTGGCCAGTATCTTTAGCAGTCATT 213018 29 100.0 38 ............................. GTATACTCAATAAAAAATTTATCACCATACTGTTACAC 213085 29 100.0 37 ............................. GAAGCATTATTTATTTTTTCTTCTATTATATCTATTT 213151 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 213217 29 89.7 38 ......G.........A...A........ ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 213284 29 89.7 36 ......G.........A...A........ CCAACTGAATAAACAATAATTTTATCAATTTCTTTA 213349 29 89.7 37 ......G.........A...A........ CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 213415 29 89.7 37 ......G.........A...A........ TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 213481 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 97.3 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : GAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTGATTGGTGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTCTATGTATCAAAAAAGTAAAAAGCCACTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAAATTTTCATTTAAGTTCAAAAAAAATAAACATTAAATTGTTTAGAACTTCACTCTACTTCCAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAAAAAGAAGCACTTACTTAAATAGTAGGTGCTTTTGTTATTCTTTGCTAGATAAAGTAACAAGTTCATTAGGTGTACATTCAAGAACAAGACAAAGCTTTTCGAATAAATCTAATTTTATAGAACTTGTTTCATTGTTAGCTAATTTCATCATGTTAGGATAAGCTATACCTACTTCTTTAGCTAACCAATATCTAGTTCGACCTTTGGATTCAAGTAATTTATCAATGTTAAAATACATTTTTTCACCTCTTAAGTATATTATACAACAATTATATAATGTTTGCAATATATAATATGCAAACAATATAATTATATAATGTTGACATTATATAATGTGTACGATATAATATACTTAAGGAATAAAAAATAAGAGCCACTCGCCCCTACCAAGTTTGAGTAACTCTTATTGACATATACTACATA # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : GTTTTAGATTAACTATATGGAATGTAAAT # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //