Array 1 217444-217088 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000001.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 217443 29 100.0 37 ............................. TCGATAGATTATGGTGGGTTATTTAACCCTATCGCTA 217377 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 217311 29 100.0 35 ............................. GGGTAGGCTTTCCGATTTTCATGTGTTTGATGCTC 217247 29 100.0 37 ............................. ATGAGAGATTTACAACTTAAAGGTTCTAATGAATTAC 217181 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 217116 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTATATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTAAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%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 37328-39065 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000012.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 37328 29 100.0 36 ............................. GAATTATTAGGAACATAAACATCCAATCCATCTTCT 37393 29 100.0 37 ............................. TTTCTAACATCCTGTACAGTCGTTTCTTGCCATGCGG 37459 29 100.0 37 ............................. CGATTTAGCTCTACCAACAACAATTACAGACTGCGAA 37525 29 100.0 36 ............................. TATTACAAATCCAACTGTTATACCTAATGCACTCGT 37590 29 100.0 35 ............................. AATACTTTATCTATTTTCAATCTTTTACTTGCTTC 37654 29 100.0 39 ............................. TAGCAGTATTTAGTGTGTGGGCTAGTCGTGTTTTCGATA 37722 29 100.0 37 ............................. TTAAAATACTTTTTTTAACTCCGTCAACTTCAACATC 37788 29 100.0 37 ............................. GTGCAAATAATAGTGCCAAGTTTGGTGGTATAACATT 37854 29 100.0 35 ............................. AAAGAGGTGATGTCTACTTTTAGCTTTGAAACATA 37918 29 100.0 37 ............................. AAATTTTTAGCACTCTACACCATCTCTAAATATTTGG 37984 29 100.0 36 ............................. GTCTTTTATAACTAGGTCTATTGAGCTATTATTTGA 38049 29 100.0 37 ............................. GATAATTGCTATTTTACTAAAGGTACGGTCGTGATTT 38115 29 100.0 38 ............................. TCGCTAGGTTTTATATCTGCTTTATTAGTATTTTTAAT 38182 29 100.0 38 ............................. TATATTTTAGATGTTAATGTTGCAAATACAAGGTTCAC 38249 29 100.0 37 ............................. AAGCTCCAAAATAGCTATAATTGGGAACAGCTCCTTT 38315 29 100.0 36 ............................. TGATTTACTGTTAGACCACTCCTGCTTATCTCTACA 38380 29 100.0 36 ............................. TCATCCAGCAATTTTTTTATTATAGCTTTCATGGGT 38445 29 100.0 37 ............................. GTTATCTTCGCCAATTGGGTTAGTTGAACAAATTATA 38511 29 100.0 37 ............................. TATTTTTTCAACTCATAATTTGCACACTTAACCTCTA 38577 29 100.0 36 ............................. AAACTAATCACCACCCCGATTACTCAATTTATAAGT 38642 29 100.0 37 ............................. CATGGACTTCTTTGAAGATTTTACAAGGTCAACAATA 38708 29 100.0 37 ............................. CTCAGTATGTATTTATAGTGCTTTTGTCAGTTGTATG 38774 29 100.0 36 ............................. TTAGAAATTTTACTTGAAAATATTATACTAAAGGAT 38839 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 38905 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 38971 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 39037 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 27 29 99.1 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [0-7] 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 35070-36402 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000020.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 35070 29 100.0 38 ............................. ATACGTTACAGCAGTAAAAAGACTAACAGGAACAAATC 35137 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 35203 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 35267 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 35332 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 35398 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 35463 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 35528 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 35595 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 35661 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 35726 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 35791 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 35856 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 35922 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 35987 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 36053 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 36119 29 100.0 35 ............................. ATTGGAACATTTAGAAGTATTGGTGCCAATGAAAA 36183 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 36249 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 36315 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC 36373 29 69.0 0 AC..........TA...CAT.T.C..... | T [36379] ========== ====== ====== ====== ============================= ====================================== ================== 21 29 98.2 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACATATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAAAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TTGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACGATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGTATATCTACATACAGAAATTGATAATTAAAAAGTAGAAATTAAAAAACTTGATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-85.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 242051-241033 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000005.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 242050 29 100.0 36 ............................. TTTGTACTTCCGCTTTCGCTGTTGACCCTGCTCCTT 241985 29 100.0 37 ............................. CGCTTTCAGTAGCTGTCGTTTCGTCTGGAATATTAAA 241919 29 100.0 39 ............................. TAGCTTGATAATAACCACCCTCCATAGGATTATCAGATG 241851 29 100.0 37 ............................. GATGACATGATAGTATTAGCTAATACAGAAGTAAAAC 241785 29 100.0 37 ............................. TTTTTTTCATCATTTAAAACTTCAACTATCTTATAAT 241719 29 100.0 36 ............................. AATATTATTGCTTTTATATTTTTTAAATTTATACTT 241654 29 100.0 37 ............................. TTGCATTCTCCCAACCATTCTAGATATTCTCCATAGC 241588 29 100.0 38 ............................. GCGCAAACATTACCACTTCCACCTTTTCCAAATAAACC 241521 29 100.0 38 ............................. AGCCTTGTCTCAATATGAAAGAGATTTAAGAATGCCAG 241454 29 100.0 36 ............................. TGAGTTAATAGAAAATTTAAATACTAATGAAAAAGT 241389 29 100.0 37 ............................. AATTTTTCGAGAGTCTCAATTTACAGAAGAAATTGGA 241323 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 241258 29 100.0 38 ............................. TCGGTTTATTCGTATTATATTTCTATAATCTTATTTCA 241191 29 100.0 36 ............................. CTTGATGATTGGCGAGAATACTATATTTGTTGGTCA 241126 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 241061 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 16 29 99.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAATTATTACATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGAGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAAGAGAAGAATCTAACTAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 [4-0] 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: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 120871-121363 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000008.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 120871 29 100.0 38 ............................. CTTTCTAGTATTATTTGAGCTAAAGAAATTGAAGCTGG 120938 29 100.0 38 ............................. AAAATTTTAGCTACTTCAATTTTATTCATGCTTTTATC 121005 29 100.0 38 ............................. AGTAATATAAACGTTTTTGCTGATAAAACAACTTATAA 121072 29 100.0 37 ............................. ATTTTTCTACAGTCTTCGTCAATTTTGAAAGCACCTC 121138 29 100.0 37 ............................. GAGGAAATGTTTAATATGATGAAAAATGGGGCGGATA 121204 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 121269 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 121335 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAATTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGTTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 129585-129296 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000006.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 129584 29 86.2 37 .AA..........A.T............. ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 129518 29 100.0 37 ............................. CGATTTTATTATAGAGTAGAGGAAGGGCTTGTAAATG 129452 29 96.6 35 ............................G TATATGGACATTAAAAACCCATTTGACTCTTATAA 129388 29 93.1 36 .............A.T............. TGTTGTATTTGTGGAAGTGAAAAGGGACTTATACCA 129323 28 82.8 0 ...............T....AC.-....A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 91.7 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ACACAATGTCTAATAAACCAGCATTTCAAGCAGTTAAACAAATTATAAGAAAACTTGATATTAAAGAAGATGAAACGAAAACAGTACTAGAAACCAATGGCTCTTGGACTGGTACTGTAACAAAATATTCTAATAAGGTTACAGAAAAAGTCAAAGTGTGGTTGAAAGAAAATAATAATCCTATCTCAATCAAAGGAGACAAGAAAAACTACTATATATTGTATAAAAATAATTAGATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATGGATAGAATAGAACTTATCAAAGAACTTGGAAGTATCTTTGAAAAAATGAAAAATGAAAATCCAGATAAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAGAAAAGAAAGAGAATAAATAATATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTGTCTGTTAAAAAATGGTATAATGGATATAGA # Right flank : TTAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGGTTATTTGGAGGTAAAGAACCATGCAGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATTTATGTAATAATTGTTTTATTAATTTCACAATATTTTCTAGAGAAAGATTAAAAGCAACTAGTGCAATGCAAGTATTAGCTGACCATGAAGGGATAAGAAAATTTATAAATTTTTCTAAAACAAACAGAGAACTGTTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTGTATCCATCGACGAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAAAATGTATATGCAACTGATGAAATTATGCAATTTGAACTTTTGGAAGATGGAGAG # Questionable array : NO Score: 3.66 # Score Detail : 1:0, 2:3, 3:0, 4:0.59, 5:-1.5, 6:0.25, 7:0.01, 8:0.8, 9:0.51, # 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 : TTATATTAACAATGTGGTATGTAAA # 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:80.00%AT] # Reference repeat match prediction: R [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: R [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-71.7]%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 2 133867-133047 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000006.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 133866 29 100.0 36 ............................. ATAACATATGAAGGTATGGAACAGACAAGTAAACAA 133801 29 100.0 36 ............................. CGCATTTGTAAGAGTTGACTTTATATTTTCCCAAGG 133736 29 100.0 39 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAAT 133668 29 100.0 37 ............................. TTTGTTGTTGTACAAGGGAATGTAACTAAAGATGTAA 133602 29 100.0 36 ............................. GATAATTGCTATTTTACGAAAGGTACGGTTGTAATT 133537 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 133471 29 100.0 38 ............................. ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 133404 29 100.0 37 ............................. CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 133338 29 100.0 36 ............................. CCAGTCATGAAACCAAAAGAATTTAGACCAGATTCA 133273 29 100.0 38 ............................. TTTTCATCAAGTATATTTATTGTTAATTGGTCTGGAAA 133206 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 133140 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 133075 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ======================================= ================== 13 29 97.9 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGATGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : AAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTACTTAAATGGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAAAGATATAGCTGAGGTAGTGTTTTACGACGCTAGCTTCAATAAAATTTTATTTGAAAAATATTCCAAAATAGCTTGACTGTAACTCGTTACAATGTTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGAGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAAGAGAAGAATCTAACTAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTT # 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 : 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 3 134696-134469 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000006.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 134695 30 96.7 36 G............................. ACCGCTTTACCTGCTGTAGTATTTAAAGAACTAATA 134629 30 100.0 35 .............................. CCTTATACACGACATTATAATATAAGTACGTTTTT 134564 30 100.0 36 .............................. TGTTTATCTTTTCATTGTTCATGTACATTTCATTGA 134498 30 90.0 0 ......................C.TA.... | ========== ====== ====== ====== ============================== ==================================== ================== 4 30 96.7 36 AGTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTGATAAATTGAAGTTTAACAGTTGCAATATAAGGCGTTGAGGGTGTGTGATAAATGTTATCAATTGTACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGG # Right flank : TAAAAATACTGAAAAACACTTACTTTTATGGTAGGTGCTTTTTTATATTAAAATCTGTGTACTTAATTGAAATATTTGGTAAAATATGTAAGAATTGTATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTGAATACCAAATTCCATAACGGAAGGAGGTGTAACAGTATGGTGATAAATTTTTTATTGAGTATACTGGCTGGTGTTATATCAGCCTTCATGTATGAGAAAATAAAAAACCACTCAAAGGCCAATAAGAGTGGTTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTG # Questionable array : NO Score: 5.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : AGTTTTAGATTAACTATATGGAATGTAAAT # 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:80.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 4 226060-225568 **** Predicted by CRISPRDetect 2.4 *** >NZ_FALU01000006.1 Clostridioides difficile isolate VL_0404, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 226059 29 100.0 37 ............................. GAATAAAAATAAATCAAAAAACTCACCTCAAACTTTA 225993 29 100.0 37 ............................. ATACTTTTCACTATGAGTTGCTAATAAATCCTCAAAC 225927 29 100.0 36 ............................. TTGAACTTTCGAACAGCAGTAACAAGAATCTTATCA 225862 29 100.0 36 ............................. TGAAAAACTAGTTAAAAACTGCATCAAAGTATTGAT 225797 29 100.0 38 ............................. ATTAAAAACATTTATTCTTTCATAGTTTGATTTTACTA 225730 29 96.6 38 ..................A.......... ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 225663 29 100.0 38 ............................. CCATCTTTTATTGCTTTACATAAATTTATATTACTTAT 225596 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 98.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //