Array 1 30963-29685 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000016.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 30962 29 100.0 37 ............................. TACAGGAAGAAAAACATTAGAGCGTATTAGAGACAAA 30896 29 100.0 36 ............................. TCACAGCACGAATAGATGTCAGTTCATATTCAGCTG 30831 29 100.0 37 ............................. AGCATTATCATAGTTTCTTTGAGCTACTGCTATTGTA 30765 29 100.0 37 ............................. ATCAGTAACACGAACACGAAGCATTTTATCTTTCAAA 30699 29 100.0 37 ............................. TATGCAGATGGAAGTGGTTTTTTTGTGTGTGGGAATT 30633 29 100.0 38 ............................. TCAACTAAAGAATCAATATTTTTCAAATTAACTCTAAC 30566 29 100.0 37 ............................. TGTCATTTTTTCACACCTCTCTTATTTATATAATAAC 30500 29 100.0 37 ............................. GGTGTATTTATGTTGGCAAGAAGCGTTGATGAAATGA 30434 29 100.0 36 ............................. CTGAGTAACAAGGATTTTTATTAAAAGTATTATCAG 30369 29 100.0 37 ............................. CCCATTTATTTACATTGTATCTAAAGAATATTTTAGT 30303 29 100.0 36 ............................. TCACTTTCTATACTATATACAGATATGCTATTTGCA 30238 29 100.0 38 ............................. GATAGGAAAATAGTTTATCAGAGCTGCACTATAGAAAA 30171 29 100.0 37 ............................. GCTGGTAAGTTTGATTTTATATCATGGTAGTAAGCAG 30105 29 100.0 36 ............................. TTAAATCCAAATTGTTTACCTGCAACAGAAATGTCT 30040 29 100.0 37 ............................. GTATAAATTGAAATCAGAAGGTTTTATTATTGATTTA 29974 29 100.0 35 ............................. CTATTAACTTTAGGTATTTTGTAAGATTTTTCCTC 29910 29 100.0 37 ............................. CATGAACATTCTCTATAATATGTGTGTTCTTCAACTA 29844 29 100.0 37 ............................. GCTGTATTTATAATTTTTTATATTTGAGTAAATTAGC 29778 29 100.0 36 ............................. TTTATACCAACAATTTTCTTCTCCATACTTTTCCAT 29713 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 20 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TACTATTATATATAACTGAATATCTAAGTGACATTTAAGAAAAATATGATGCTTACTGACATAAAACTGAACGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTCTTTATCCATATCGTCTAAAATAAGAAAATATCTATTCATAGTTATTTTTATATCAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGCATTTACAGATATGCAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATATAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTCTTATTGATTAAAATATAAGAGTAGAATAATTATAAAAAGTATTGAAAAGTTTATAAATATATATAATAAAACTTAATAACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATAAATATTCATACTATAATTTAGATATAAGGAGATGTCCTTATAAACTTAAAGGGTTTGTACTATTTGTACTATAAGTATTGATAATCTTAAAGTATATATACTATTTGTATTTGTTGAAAAAGATTTTAATAGTAATACAATATTAAACAACACAAATATCAAAATTTAATATTGATATAGGTATAAACATTATAAAAACAACTGAAAATAAAAATCAAGAAATATTTAATGCTACTACAATAGGAACTAGAACT # 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 : 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # 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 [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 198835-198995 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000002.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 198835 29 100.0 38 ............................. GAAAATTTAATGAGAATAATGAAGAAGGTATATAAAGA 198902 29 100.0 36 ............................. TGTAACTTTTCCTTTTGACGCTTTCCCTGTGTCTTC 198967 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 3 29 100.0 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TGTATCAAAAAATTATCCTCCCAACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGTATACTAGCGAGTCTATCTGCTAGTTTAATAGTCTATATAACTAGCAAGTTATTTGGAAAACGTAAAAAACCACTCAAAGCTGCAACTAAGAGTGGTTGGGAGTTTGATTTTAAAATCAAATTCCGTAGATTTAAATAATTACAAATTGTTTAAATTATGAACTCCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATGTTTATGATATAATAAAAGTATATTATTTTTGCAGTGAGCGATATTTGTATTAAAATATGCTTTAACCGTTGAAATGTAAGGCATTGAGAATGTGTGATAAGTGTTATCAATTGCACTACTTGTGCTTCACTGCAAATTTAAGAGAGTTATGTAAGTGTAAGTATTGAAAATACTTAGTTTATTTTGGG # Right flank : TAAGAAATTGTTATGATAATGACTCTATAGAAAATTTCTTTGGTTATCTTAAAAGTGAAGAGATCTACTTAAATTTGTATACTTCAAGAAATGATTTAGAAACTGCTGTTCATAGCTATATACGTTGGTATAACTATGATAGATTACAATCTAAATTAAATAGCAGCACACCTGTAGAATATAAGCGTGCTGCTTAAAAATGACTATCTTATTAAAAACTGTCTACTAATTAGGGTTCAGTTCACATATAAGTGCTACCTTTTATTTTGTAGATAAAGTGTTTTACTGACATAAGTATTAAATTTACATTTTAAAATTATTTAAATATCAATAAATAATTAAATAGAAATTATTATAATTAACAATAGATTCCTTTTTCAAAGAAGTCTTTAATTTCATCAAGGTTATCAGTTTTTCCAAGTGCTAAGATAAGTTTTATTCTAGCTTTTTGACCTGGCAAGTCTCCACCAAATATACAGCCAAGATTTTTTAAATCTCTA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-76.7]%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 73541-76067 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000021.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 73541 29 100.0 37 ............................. TATTCCAAATAAAATTTTAAAGCACCTTCATAGATTT 73607 29 100.0 38 ............................. TAACATCTGAATTATCATGTTGACATAAAAAGTTAATA 73674 29 100.0 36 ............................. TTTAAAATACTCTTTTTAACTCCGTCAACTTCAACA 73739 29 100.0 36 ............................. AATGACAGCGAATTTACAGAAGGAATAATGCAAAGT 73804 29 100.0 36 ............................. TTTTCTATTAGATGTGCATGCGGAGAATCATTTTTT 73869 29 100.0 38 ............................. TTTACAAGAGTACCTAATACAATCCTCGACAATGAAAA 73936 29 100.0 37 ............................. ACACATACTTTGTGGAATACACAGAGGAACAGGAAGA 74002 29 100.0 36 ............................. CTGCTGGTGTTGACACACCTATAAACTTTGCTAATT 74067 29 100.0 37 ............................. AGAGAAATTTTATTCAAAAGTATAACTTCATCAGTAC 74133 29 100.0 37 ............................. CAACTAAGCAACTCATCATTATAATGTTTACTAACTA 74199 29 100.0 37 ............................. CTATTTTTTAAATGTATTAAAAGAAAATATCAAAACT 74265 29 100.0 37 ............................. AAATGTCCGAAATGTAATAAATGTAATAAAATTCAAA 74331 29 100.0 35 ............................. ACGGGCAAAGAAGGATTCTCAACATCAGGAACTGT 74395 29 100.0 36 ............................. TATATCAAAACTAGAAAATCAAGAGTACAAAGATAT 74460 29 100.0 37 ............................. CCAATGCATCCACGTTGCAGGTGTACGACTATACCAT 74526 29 100.0 38 ............................. TTCAATAAAATTTTAGCATAAATTTGTGATGAATTCTG 74593 29 100.0 35 ............................. ATCTTTAATACAAAGTATAACACTTTATTATTATG 74657 29 100.0 38 ............................. TCAATAATTAATTTGAAAAGACAATTAATTATTTCAGT 74724 29 100.0 37 ............................. TTTTTTGTTTTATAACAATATCTTTCTTTGAAATAAG 74790 29 100.0 37 ............................. CTTTTAGCTTTTTTGTTAGTGTTCTTTATTGCTGTTA 74856 29 100.0 38 ............................. CAAAAAGTCTTGAATAATCTTTCAGGTTATATTTTAAA 74923 29 100.0 36 ............................. CAATTGGAACTTTCTGCATCTGTGCGAGGTGTGTCT 74988 29 100.0 37 ............................. TGATACAAATACTTTTTCTTTAACTCCAAGTTCTTTT 75054 29 100.0 37 ............................. TCATCATGGCAACTCGTAGGAATATAAATAGTGTTTG 75120 29 100.0 37 ............................. ACTTTTTGTTTGAAAGAAAAAGGATATTTTGCAAGAG 75186 29 100.0 37 ............................. ATATCAATAGCAGGATTATCAACATTAGGAACTGTAA 75252 29 100.0 37 ............................. TATATTAATAGAAAAGGCGAGTTTAAATATGTGATAA 75318 29 100.0 38 ............................. GGTCTTACATTGGCTATAAGGTCACTTTCTACATTTTT 75385 29 100.0 33 ............................. TTTAGTTATTTTTATATATAACAGTTCTTTCGC 75447 29 96.6 36 ............................G CTTAATTTTTTAAGTTATTTGCAAGATATAAAACTA 75512 29 96.6 38 ............................G ATCTCTGCTCTCTTTTGCAAATTGAGAATCTTTTAATA 75579 29 96.6 35 ............................G TCTTTTTTAAGATCGTTTATATTATCCATTGCAGT 75643 29 96.6 38 ............................G ATATATACCATCTTTAGTTTTACTTTTCTTTTTACATG 75710 29 96.6 39 ............................G ATTGAAAGCAATCAAGTTTATCTTTCTTCTTATATAAAT 75778 29 96.6 37 ............................G GAAATTGTTAATGTTGTTACTACTCTTGCTGTTGCTA 75844 29 96.6 37 ............................G TTTTGAGTGTATGTTTCTTTTGTTTTATTATTTAAGA 75910 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTGTTTAGAAACTT 75975 29 82.8 34 ............TA...CA....A..... TGTAGAATCAACAATAGCATATACTAAATCAGCA G [76002] 76039 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================= ================== 39 29 98.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAAGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGTATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTACACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAGGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATGCTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGGTGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGAGTACA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [0-16] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-80.0]%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 74985-75207 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000022.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 74985 29 100.0 37 ............................. ATGAAAGATGTAGCTCTGGCAACGGGACTAATGGTAA 75051 29 89.7 36 AT.....................T..... GCCATACCTGCGTAATATATCGCATCAGCCACTTCT 75116 29 89.7 36 .T.............T............G GCCTTAAAGGCGTCATCTAAGTTTTTAGTAGTCTTT 75181 27 86.2 0 AT..................-.-...... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 91.4 37 GCTTTATATTAACTAAGTGGTATGTAAAA # Left flank : AAGAAAAAGTAGATAAAAAATATCAAGAGAAGAATAAAGAGAAAGCAGAAACGAAAAAGCAAACATTAACTAGTGAAGAATTAAAGAAAAAAGTTGAGTCAATAATTTCATCACAGTATAAAGGAAACTATTATACAAATGATATACTGGATGCAGATGGTAGTTGTGTACTTAGTTTACAGGTTCAAAATGCAAGTTTTGACAACGAAAGCAGTTGTAAGGTATTTACTAAAGACTTAATTAACAAGTTGAAAGAATTTAGAATAGACTCAGCAGAGATATATTTTGTAGGTTCAAGCGGTCAAACAACATATCAAATTAACATAGATGATTTCTTGAAAGTTCAAGATAATATTGATAGCATAGACAATATGGAGTTTTTTTCTTTTAAAGATTTTAAAAATTAGAAACAAAATAGAGACATTTGCTTAAACAACATGTGTCTCTATTCTACCAAATTATGTTATAATAGTACTTAAGAAATATAATTTTATAGCATG # Right flank : ACTAAATAGAAAAAAGGAAGCACTTGCTTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTGAAATAATTAGAAAAAATTAGTAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAGAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAAAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGTTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAGTATACGTCATTCCTTAAAAAAATTCAATTAAGGAGTGTAATATTATGAAAAATTTAATAGTAAAAGAGTTCAATGGAAGTCAA # Questionable array : NO Score: 3.62 # Score Detail : 1:0, 2:3, 3:0, 4:0.57, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 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 : GCTTTATATTAACTAAGTGGTATGTAAAA # 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:80.77%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-66.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.18,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 59728-58845 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000003.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 59727 29 100.0 37 ............................. AGGATTCTTGTTCAAATTCGTAGTTTTTATCTTTGGA 59661 29 100.0 37 ............................. CAATTGGAACTTTCTGCATCTGTGCGAGGTGTGTCTT 59595 29 100.0 36 ............................. TCTGAAACTGGAGAAGTTATATCGGCAGGAACTCGT 59530 29 96.6 36 ....................C........ GTTTTCCCTTCAAGCTTTGAGATAAATGGAAATATA 59465 29 100.0 35 ............................. TGCTGTCATCCATTTTAACAACCCTGCCAAACATC 59401 29 100.0 37 ............................. TCATTTACTAAAGTGGCATATTCAACCTTGTCTTCAA 59335 29 100.0 37 ............................. TCTATTCTGACACCGAGCTGTGTGCCATCCCAAATAG 59269 29 100.0 37 ............................. CTTATTTCTAATATATCAAGATAGAAAGAAACTATCA 59203 29 100.0 36 ............................. TGTTTATTGCTGATGGAGTGTTAACAATATGACTCA 59138 29 100.0 37 ............................. GAAGGTTTGACATTATCAGCATACTCGGTAACTATTT 59072 29 100.0 37 ............................. TCAGCAGCGAAACAATTTACAGCAGAACAAGCAACAA 59006 29 96.6 38 ............................G ACAAGGTTAATACAGATATTAAAGCTAAAAAGTAAAAA 58939 29 93.1 37 ...............A............T AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 58873 29 69.0 0 ......C........AAAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 96.8 37 GTTTTATATTAACTATGTGGTATGTAAAC # Left flank : TTAAATATCTAAGGTTTTATTTGACGTGCTCTTTTTTAGATGGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTACTTTTACATGTTTTAACTGTATAAAACAGTGGGTATAGTTCAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATGCTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : GTTTTATATTAACTATGTGGTATGTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [12-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-65.0]%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 24506-24279 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000030.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 24505 29 100.0 36 ............................. TGTTTCCATAACTCTGACATTTTAGAATTAGGAATA 24440 29 100.0 38 ............................. AGGCGGTACAGGGTCTAGTAAAAGTCAAATATATTCAT 24373 29 100.0 37 ............................. CTTCCTGCACTTTCTGATTCTAAACTTGCATTACTAG 24307 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAG # Left flank : TAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTATTTAAACTATGCTTGTTCAGGTAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCACTGTATATAGATTACGTTTTTTCTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGATAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTATATGATAAGTGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATATGTGTAAGTATTGAAAATACTAAGTTTATTTGGGG # Right flank : TTTTATAATTTTCTTTTAAGGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAGTATAGAAATCTTATCACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTATATAATTACATATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGTTAATGATGTTATTGCAGTATCTAATCTTCTTATTTAATAAACTCATTTCTATATCTTCAAGTCCTATTAAATATTGATAAAATTTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAACTTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTATAAATTCCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTATGA # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 : GTTTTATATTAACTATATGGAATGTAAAG # 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 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [81.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2115-944 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000006.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2114 29 100.0 37 ............................. CGGCAAACTTGAACTGTTTTTTCTTTTGCTTTTAAAA 2048 29 100.0 37 ............................. TTCATTGCTCTGTATCTTTTTTTAGTAAAATTAGCTT 1982 29 100.0 38 ............................. AGGGTTGGGTTCTGGTGTATTAAGAGGCGAGGAACTAA 1915 29 100.0 37 ............................. AATTTTAAGAGGAAAATCCATTATTGCTATGTTATAA 1849 29 100.0 36 ............................. TCCTCTGCTCTTCACATTTAATAGACTTTCAAGCAA 1784 29 100.0 37 ............................. ATTTTTAAAGAATTTGCTTGGGATTTTGATAAAGATG 1718 29 100.0 37 ............................. GCTGTTACTGCTACTCTCATTTAAAGACCTTCTTTCT 1652 29 100.0 37 ............................. TATGTAAGCGGAGACAAAATAGAAGTTGATTATGTGC 1586 29 100.0 37 ............................. AAACTTTTAAAAGATTATGCTAGAAAAATTCATGTTG 1520 29 100.0 37 ............................. TTCATTGACCAAACAGTTTGCTTACATCTAAGAGAGA 1454 29 100.0 37 ............................. TAGCTTTCCTCCTAATTTTGATTATTTATTTTTTATA 1388 29 100.0 35 ............................. TAGTTTAAAGATTGCATTCTTATACCCGCTAGTTC 1324 29 100.0 36 ............................. GTACTCAATATTATTATTCAAATAACTTCACCTCTA 1259 29 100.0 0 ............................. - Deletion [1231] 1230 23 69.0 38 ------..........G...T.......G ATAGCAACTGGTAGCAACATAGCACTTATACTTGTAGC 1169 29 86.2 38 A...............G...T.......G CCCATAGAACCAACATATTTAAATGTTTCACCCATTAG 1102 29 82.8 36 A..............AG...T.......G AACTCTGCAAAGCTAGATTTTAAGTTATCAAAAACT 1037 29 86.2 36 A..............AG...T........ TCTTTAAAAGCATTGAAAGCATCACTCATACATTGT 972 29 79.3 0 ...............AG....T.CA...C | ========== ====== ====== ====== ============================= ====================================== ================== 19 29 94.9 35 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCAACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAAATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTATGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TAAATAAACAAAGGAAGCACTTACTTTTTGGTAGGTGCTTTTATTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGGAAAAATTGGTATAAGTAATTGACTTTTGTTGCCACATAAATTATAATATATTTGTAGCAACGAAAGTGAGGTGAAATAAATGCCACAAAAAAAGATGGGTCGTCCAACAGAAAGTGTAAAAGATACTATGATTAGAGTAAGAGCTGACAAAGATACTATTGATAAGTTAGATGAATGTGTGAATTTATTAGATAGTAATCGTTCTGAAATAATAAGAAAAGGTATAGACAAAATATATGATGACCTAAAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTAAACACCAGAAGTTACCTTCTATGAAATATATTCTATCATAGTAAGGTACTTCTTACAATCAAATTTAAGGAGGAATTTACTATGAATGAATTAATGAATTTTGAAGGAAAAGAGATTGAA # Questionable array : NO Score: 5.85 # Score Detail : 1:0, 2:3, 3:0, 4:0.75, 5:0, 6:0.25, 7:-0.15, 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 [23-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-68.3]%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 1 379-995 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000063.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 379 29 100.0 36 ............................. TTTTTATCTGTAGCATATGTTAAGTTCTTTAATTCC 444 29 100.0 35 ............................. TCAATACAATTAAATTCTCAGACTTGTATTATCAC 508 29 100.0 37 ............................. ATAGCTAAAACTATTGCACCAACGGGTCCAAGAACTC 574 29 100.0 37 ............................. TTTTTTCACCTACTTTCTACATCTGAACGCTTATATT 640 29 100.0 35 ............................. ATGACTAGAAAATTCGTAGAGGATTTGACAGCAAA 704 29 100.0 37 ............................. TGGATTGGATATGACCCCTGGCATGTAGATTCGAGTC 770 29 100.0 37 ............................. GATACTACAGCACAGATATTATGGTTGAAAAATAGAA 836 29 100.0 36 ............................. TATACAAATTATGCTTATAGAAGCTTTCAAAAAGTC 901 29 100.0 37 ............................. GCGAGGGAAGTTTTTCAAAAGAATTGTATAGTTGAAA 967 29 82.8 0 ......T........AG...T.......G | ========== ====== ====== ====== ============================= ===================================== ================== 10 29 98.3 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATGAAGATGTAGAATACTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGCGAAGAAAAGTTTCAAGAATATGCAGAGATATTAAGAAGTATTCTTAGGGAACAACAGGAGAGAGAAAATAAGTAAAATAAATAGATAAAGTACTTGGATATTATGTTGTTTCAAGTGTTTTATATGGTGAAAAGTGGTATAATAGAGATAGAAGTTTTGCAGTGAGCGATATTTGTGATAAAATATGGCTTAATACTTGAAATATAAGGCATTGAGAACGTATGATAAGTGTTATCAATTGCACTATTGGTCGCTCACTGCAAATTTAAGAGAGTTGTATATGTGTAGGTATTGGAAATACTAAGTTTATTTTGGGG # Right flank : GGAACTATTTCAACTTATATACATTTTTTATTTTAGATAAAAAGCAAAGTAATTTAAAAGTGTATTGTTTAGTACTTAGTTATCTTTTGAATATAATAAATTTTTCTCAACTTGATAATAAATAATAATTTAATTAGATATAAGCGAGGTGAAAGGAGCATGTTTACAGATATAAGAAGCAAACGTATTATATTTATTGCTCATTGTGTGTTAAATCAGAATTCTATCTCAGATGGTACTGCTGATTATCCTAGTACAAATGTGGATATTATTCGTATTCTAATAAATAAACAAGTAGGTATCGTGCAGATGCCTTGCCCAGAGTTATGTTGTCTTGGTCTAGATAGAGGAAATATTTTTGGGTCTCAAAGTCCTGTCGTGGTTGAAAACACACGTATTAGAAAAGAAATGCAGAAATCACCAGCTGTGGAACAACTTGCTGTGTTAGTTGACCAGGTTGTTTTACAAATTACAGAATACCATAAACATGGGTTTGAGAT # 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%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 44240-43748 **** Predicted by CRISPRDetect 2.4 *** >NZ_FAAJ01000010.1 Clostridioides difficile isolate VL_0104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 44239 29 96.6 38 A............................ TTGAGGCTTTTCTGCTTTATTAAAGTCTTGCTACTACT 44172 29 96.6 37 A............................ TGCTAAAGAGTACATTGTTTCTCATGTTAGTTTCTTC 44106 29 96.6 38 A............................ TATCTATATATTTAATACATTGCATCTTCTTTTTCCAA 44039 29 100.0 36 ............................. TTTATTCTTGGTACAAATATATCTATTGTATTAGAA 43974 29 100.0 38 ............................. TTTAATTTATTTATGTACTTAATTATTGTATCAAATGA 43907 29 100.0 36 ............................. TTATTTTATCATAGTCTTTTGCTAAAGAAAGTATGT 43842 29 96.6 37 ............................G GACTTTGTAAATGCTGAGAGTGTAGATGATATAGACA 43776 29 79.3 0 ......T........T....GC.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.7 37 GTTTTAGATTAACTAAGTGGAATGTAAAT # Left flank : TACTTATTCTTAAATAAACTAATAATAAGATTAAATATAATAAATCCAGTTGTTGAACCTAAAGCACTAACAGGTACTGATGACATATTAGCGAAATTATTCAATGCTGATAGACATAACATTACTATAGAAACTATAACTAAATAAGATATCACTGTAAAAAATGGAATTGAAATACTTATATTTAACTCTGCTTCATATTCTTTCATAATATCATTCCTTTCAAATTATTTTACTTAACTTTATTATAGCATTTAAACATAATTAAATGTAAAAATACAGTTAAAAATTAATTGAAAATATCAATTATATGTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAACACTTGAAATATAAGGCATTGAGGGTATGTGATAAGTGTTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAAATAATCAAAAAACACTTGCTTATGGTAGGTGTTTTTTTATTGAAAGGATGTGATAATAATGTAAAAATTTTACTAATATAGTATAATAATGCTATAAAATTATGTAGGGGGTAATCTTATGGGATTATTTGGAGGTAAAGAACCATGTTGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATCTGTGCAATAATTGCTTTGTTGATTTTACAATATTCTCTAGTGAAAGATTAAAAACAACTAGTGCAATGCAAGTATTAGCAGACCATGAGGGAATAAGAAAGTTTATAAATTTTTCTAAGAAAAATAGAGACCTATTAGAAAAATTTGTTGAGACAAATAAAATTAATAGATTCATATCAATTGATGAAAATAATAAATTTATTAAAATATCAGATATTCGTAAAGGCGGAGATATAATAGAAACCGTATATGCAACTGATGAAATTATAGAGTTTGAACTTTTAGAAGATGAAGAGTC # Questionable array : NO Score: 5.74 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 5:0, 6:0.25, 7:0.01, 8:1, 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 : GTTTTAGATTAACTAAGTGGAATGTAAAT # 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 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-63.3]%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], //