Array 1 46334-47666 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000016.1 Clostridioides difficile strain LC4-013-3 NODE_16_length_61608_cov_48.8337, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 46334 29 100.0 38 ............................. ATACGTTACAGCAGTAAAAAGACTAACAGGAACAAATC 46401 29 100.0 37 ............................. ATACTTGGTCAATACATTTCAAAAGTTGCAACAGAAC 46467 29 100.0 35 ............................. AACTTATCAGCATCTTTTTTATAAGTTCCAACCAC 46531 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 46596 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 46662 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 46727 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 46792 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 46859 29 100.0 37 ............................. CTCCCAGGAGTACCGCTATAAAAATAAATCATACAAT 46925 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 46990 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 47055 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 47120 29 100.0 37 ............................. AATTTTTGAAATGCACTGAATACTCATTTATTACATC 47186 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 47251 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 47317 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 47383 29 100.0 35 ............................. ATTGGAACATTTAGAAGTATTGGTGCCAATGAAAA 47447 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 47513 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 47579 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC 47637 29 69.0 0 AC..........TA...CAT.T.C..... | T [47643] ========== ====== ====== ====== ============================= ====================================== ================== 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 252407-251389 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000001.1 Clostridioides difficile strain LC4-013-3 NODE_1_length_731342_cov_51.0368, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 252406 29 100.0 36 ............................. TTTGTACTTCCGCTTTCGCTGTTGACCCTGCTCCTT 252341 29 100.0 37 ............................. CGCTTTCAGTAGCTGTCGTTTCGTCTGGAATATTAAA 252275 29 100.0 39 ............................. TAGCTTGATAATAACCACCCTCCATAGGATTATCAGATG 252207 29 100.0 37 ............................. GATGACATGATAGTATTAGCTAATACAGAAGTAAAAC 252141 29 100.0 37 ............................. TTTTTTTCATCATTTAAAACTTCAACTATCTTATAAT 252075 29 100.0 36 ............................. AATATTATTGCTTTTATATTTTTTAAATTTATACTT 252010 29 100.0 37 ............................. TTGCATTCTCCCAACCATTCTAGATATTCTCCATAGC 251944 29 100.0 38 ............................. GCGCAAACATTACCACTTCCACCTTTTCCAAATAAACC 251877 29 100.0 38 ............................. AGCCTTGTCTCAATATGAAAGAGATTTAAGAATGCCAG 251810 29 100.0 36 ............................. TGAGTTAATAGAAAATTTAAATACTAATGAAAAAGT 251745 29 100.0 37 ............................. AATTTTTCGAGAGTCTCAATTTACAGAAGAAATTGGA 251679 29 100.0 36 ............................. TTTTAAGCGTGTTGCAATATGATTGCCTTATGTTTG 251614 29 100.0 38 ............................. TCGGTTTATTCGTATTATATTTCTATAATCTTATTTCA 251547 29 100.0 36 ............................. CTTGATGATTGGCGAGAATACTATATTTGTTGGTCA 251482 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 251417 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 16 29 99.1 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAATTATTACATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 2 495859-495503 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000001.1 Clostridioides difficile strain LC4-013-3 NODE_1_length_731342_cov_51.0368, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 495858 29 100.0 37 ............................. TCGATAGATTATGGTGGGTTATTTAACCCTATCGCTA 495792 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTTTGAACGCTACCAC 495726 29 100.0 35 ............................. GGGTAGGCTTTCCGATTTTCATGTGTTTGATGCTC 495662 29 100.0 37 ............................. ATGAGAGATTTACAACTTAAAGGTTCTAATGAATTAC 495596 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 495531 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 35530-36677 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000013.1 Clostridioides difficile strain LC4-013-3 NODE_13_length_94106_cov_49.4821, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 35530 29 100.0 36 ............................. GAATTATTAGGAACATAAACATCCAATCCATCTTCT 35595 29 100.0 37 ............................. TTTCTAACATCCTGTACAGTCGTTTCTTGCCATGCGG 35661 29 100.0 37 ............................. GATAATTGCTATTTTACTAAAGGTACGGTCGTGATTT 35727 29 100.0 38 ............................. TCGCTAGGTTTTATATCTGCTTTATTAGTATTTTTAAT 35794 29 100.0 38 ............................. TATATTTTAGATGTTAATGTTGCAAATACAAGGTTCAC 35861 29 100.0 37 ............................. AAGCTCCAAAATAGCTATAATTGGGAACAGCTCCTTT 35927 29 100.0 36 ............................. TGATTTACTGTTAGACCACTCCTGCTTATCTCTACA 35992 29 100.0 36 ............................. TCATCCAGCAATTTTTTTATTATAGCTTTCATGGGT 36057 29 100.0 37 ............................. GTTATCTTCGCCAATTGGGTTAGTTGAACAAATTATA 36123 29 100.0 37 ............................. TATTTTTTCAACTCATAATTTGCACACTTAACCTCTA 36189 29 100.0 36 ............................. AAACTAATCACCACCCCGATTACTCAATTTATAAGT 36254 29 100.0 37 ............................. CATGGACTTCTTTGAAGATTTTACAAGGTCAACAATA 36320 29 100.0 37 ............................. CTCAGTATGTATTTATAGTGCTTTTGTCAGTTGTATG 36386 29 100.0 36 ............................. TTAGAAATTTTACTTGAAAATATTATACTAAAGGAT 36451 29 100.0 37 ............................. ACTCGACTGAACATAGAAACAGCTTTTACAACTCCAA 36517 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 36583 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 36649 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCACATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] 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 120310-120802 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000008.1 Clostridioides difficile strain LC4-013-3 NODE_8_length_211645_cov_49.1658, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 120310 29 100.0 38 ............................. CTTTCTAGTATTATTTGAGCTAAAGAAATTGAAGCTGG 120377 29 100.0 38 ............................. AAAATTTTAGCTACTTCAATTTTATTCATGCTTTTATC 120444 29 100.0 38 ............................. AGTAATATAAACGTTTTTGCTGATAAAACAACTTATAA 120511 29 100.0 37 ............................. ATTTTTCTACAGTCTTCGTCAATTTTGAAAGCACCTC 120577 29 100.0 37 ............................. GAGGAAATGTTTAATATGATGAAAAATGGGGCGGAGA 120643 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 120708 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 120774 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 121189-120832 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000006.1 Clostridioides difficile strain LC4-013-3 NODE_6_length_232017_cov_48.7049, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 121188 29 93.1 37 .AG.......................... GCTGTATCCTTTGCCCCTTTTGCTGCGTCACTCAAGG 121122 29 86.2 37 T............A.T............G TCGTTTATCATTGCTAGCCTCGCATTCGTACTGGTCA 121056 29 93.1 37 A...........................G ATTCGCGATACTATTTGTGCAGTATCTAAGTAGGATG 120990 29 100.0 36 ............................. CATTCACTACAAAATATATATTCTAATGTATCATTC 120925 29 89.7 37 ...............TA...........C AATATATATAGCAAATCTGTTATATTAACTATGAAGC 120859 28 82.8 0 ...............T....AC.-....A | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 90.8 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CACAGTTGGCTGTTTGTGAGATTATTAAAAAGATTGATTTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACTAATGGAAGTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAAATAAGAAATTGGATAGAGGAAAATAATAGACCTGCTAAGATTGCAGGTGAGAAGAAGAATTTCCATGTAGTGTACAAAATTGAGTAAATTTGATTGTATTAAATAATTTAGTTTAGTTTAATTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATAGATAGAATAGAACTTATCAAAGAACTTGGAAATATCTTTGAAAAAATGAAAAATGAAAATCCGGATGAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAGTGTAGGAAAAAAGAAGAGAAAAATAAATAAATAGACAAATAAAGCACTTGAATATTTTACTGTTTCAAGTGCTTTATGTAGTAAAAAATGATATAATATAGGTAG # Right flank : TTAAAAATAATTAAAAAACACTTACTTAGGTAGGTGTTTTTTTAATTGAAAGTAGGTGATTATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTGCGTAGGGGGTAATATTATGGGATTATTCGGAAGTAAAGATAATTGTTGTATTTGTGGAGAAAAAGGAAAACAAAAAATAGCTGATGGATGGTTGTGTAAAGAGTGTTTTAAGAAATATGCAGTTGCCACCTTTACTCCAGGAAATACTTTATATCGTGGGTTACCAACTAAATTAGAGGTAGAGAAGGCTATTGAATCAAAAGATGATAAAGAAAAAGAGCTTAAAAATTTTAATCCTACAAAAAAAATATTAAAATTTATGGAATTTGATGATAATAATAAGAAATTTATTGTTTTAAATGGGTTTAATAGAGAAAAAGTGAATTTAAGTGTTTATAATTACAGTGATGTTATAGAATATGAACTTCTAGAAAATGGCGAAACTGTGACTA # Questionable array : NO Score: 3.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 5:-1.5, 6:0.25, 7:0.01, 8:1, 9:0.41, # 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:81.48%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 [6-4] 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 2 123812-122774 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000006.1 Clostridioides difficile strain LC4-013-3 NODE_6_length_232017_cov_48.7049, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =========================================================== ================== 123811 29 100.0 37 ............................. TGTGGTGGTATTTTTAAGTCCTAAGCATTTTCGCTTG 123745 29 100.0 38 ............................. GTCGGAGAAGTTGCTAGGTAATTATTGTATCCATTTTC 123678 29 100.0 37 ............................. TTCCTCCCGCTTCCGCTGCACGTAAAACTGGTTCTAG 123612 29 96.6 36 ...........................G. CGTGATTTTATAAAAGATTTATATAGTATGTTTTTA 123547 29 96.6 38 ..........G.................. TTAATAGAACCTAGTAAAACGGCTACACTACCTTTAGA 123480 29 100.0 59 ............................. TATCTTCGCTGTCCCAAATAAACATCATAACCAACAAGTTTTAGCTGCTTCTATAGATA 123392 29 100.0 36 ............................. TAACTAAATGTTCTTGCAGTGTCACTACATGTTTGA 123327 29 100.0 37 ............................. AAAAAATCGTTAAGATTATTTTCTTCTTGACCAAATT 123261 29 100.0 34 ............................. TCATAATAATACTCTTTGACTGCATACCAAACAT 123198 29 100.0 36 ............................. CCAGTCATGAAACCAAAAGAATTTAGACCAGATTCA 123133 29 100.0 38 ............................. TTTTCATCAAGTATATTTATTGTTAATTGGTCTGGAAA 123066 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 123000 29 89.7 37 ......T.........G...T........ TAATGTTCTTTTCTCTATACTGCTCATGTTTACATAG 122934 29 89.7 36 ......T.........G...T........ GTGCAAAACATTTAGAAGCAAAAGAAGTAAAAATAA 122869 29 100.0 38 ............................. TAAATTGTTGAAATTTCTATATCGACGCTTAATAAATC 122802 29 79.3 0 ................G....GAAA..C. | ========== ====== ====== ====== ============================= =========================================================== ================== 16 29 97.0 38 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : AAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTTTGCTCAAATTTGGTCGGTTGGGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTCGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAGAAATAACAAAATAGAGCATTCTCCCCGACCAAAGATTGAATGCTCTATTTCCAACAAAGAAGTTAGCACTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATCAATTTGAGGAGGAATTTATATGAAAACTAATTTAGAATTAATCAAATCAGAAAACTTTGGAG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.07, 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 [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 3 214220-213728 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERE01000006.1 Clostridioides difficile strain LC4-013-3 NODE_6_length_232017_cov_48.7049, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 214219 29 100.0 37 ............................. GAATAAAAATAAATCAAAAAACTCACCTCAAACTTTA 214153 29 100.0 37 ............................. ATACTTTTCACTATGAGTTGCTAATAAATCCTCAAAC 214087 29 100.0 36 ............................. TTGAACTTTCGAACAGCAGTAACAAGAATCTTATCA 214022 29 100.0 36 ............................. TGAAAAACTAGTTAAAAACTGCATCAAAGTATTGAT 213957 29 100.0 38 ............................. ATTAAAAACATTTATTCTTTCATAGTTTGATTTTACTA 213890 29 96.6 38 ..................A.......... ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 213823 29 100.0 38 ............................. CCATCTTTTATTGCTTTACATAAATTTATATTACTTAT 213756 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], //