Array 1 57912-56500 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000011.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00011, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 57911 29 100.0 37 ............................. TGATGAACGATAAAACAATTATCAAACTCAGGAGAGA 57845 29 100.0 37 ............................. CACAAGTTACTTTAAAATTAGAAAAACCAATTTCAAA 57779 29 100.0 37 ............................. CTGGGATTATAATAATATACACTTCTTCTAAAGTAAA 57713 29 100.0 35 ............................. CTAATAGAAAAATCAACTTGATAAGAATTAACCAA 57649 29 100.0 37 ............................. TGACGAACAATAAAGCAGTTATCAAAATCAGTAGAAA 57583 29 100.0 37 ............................. ACAAGGTCAGTAACATCACCAGCAATTGGAACATCTA 57517 29 100.0 37 ............................. GTATAACTTTTTTACAATTATTACAAAACTTATCTTT 57451 29 100.0 37 ............................. ACATTTGAAGAACAAAACTTAGACTTTTATAACGCAC 57385 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 57319 29 100.0 38 ............................. CTAGTACCCTTCCACCAGCATCAATTGCATTATCAACC 57252 29 100.0 37 ............................. ATATAAGCAGGAAATAAACCAGCCTTTTTTGCTAATG 57186 29 100.0 36 ............................. CTTGCTGGATTTGAATTTAATATAGAATTTTCTCAG 57121 29 100.0 36 ............................. AGCTACTTAAACACATCAGTAATGGCAAATTATGGG 57056 29 100.0 37 ............................. CAAATTGCTGACAACACTGAAAGCATTATGAACGCTA 56990 29 100.0 36 ............................. TGAGGTATTAAGACGTTGAACATTTGCAGAGCATAA 56925 29 100.0 37 ............................. CGAAAAATACATTCAAGTCCAAAGCCATTGGCGAAAC 56859 29 100.0 36 ............................. TCTGGAATATGAGAAGTTTCTGTAGTACCATAAAGT 56794 29 96.6 39 ...............T............. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 56726 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 56660 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 56594 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATATCTTTGAAATTT 56528 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATATAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAGTTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTATAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 13855-13569 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000013.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00013, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 13854 29 100.0 37 ............................. CTGACTACACTCTTTATTTTACTAGCAGCAGAAGAAA 13788 29 96.6 37 ...............A............. GTCGGACTTATTATCATAGATATCCCTTTTGCCAAAA 13722 29 96.6 35 ............................A ATTGTTTTAAATTGATTAAGTACATCTGTTGATTT 13658 29 75.9 32 A.................AT...AC..TT AAATTAAAAAATATATTTGAGTTAGAGAGGGA 13597 28 72.4 0 .....T....CGT...T...A.-.....A | G [13589] ========== ====== ====== ====== ============================= ===================================== ================== 5 29 88.3 36 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : TGTAAAGAAGCTGTATTTGTAACTGAGGGAATTGAATATCAAGTGGCAGATGGTGATGGAAATGTGCTACAAACTTATCCAGTAGACGATTCAACTAGAATGCAACAAGAAACAACAGCAGGTACTAAATCAAAGGGAACAACAGCGTTTGCTATAACATCAGACTCAAATGCTGTAAAAATAATTGTAAAAGATAAAGTAAATAATAAGGTCATGGGAGAAATAAATGCTACTTTAGAATAAAAATAGTATTAGAGAAAAGAAAAAAGTTAACAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATAAATTGGATGTAATCATTGAAAGTGCTATGATATAAGCATGTTTTGTGGTGTGTGAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGCAAGAACTGGAAGTGTTCAATTTATTTTGGG # Right flank : TTACAAAAGAAGAAAAAGAGAAAAATCGAGAAGAAACTGCAAAGTATTATGAAAGACTTAAAAATATGACAAAAGAAGAAAAAAAAGAGTATGAAATTCAAGAATTTATGAAGAAATATCAGTTAGAAAATTTAGATGAAAAAGATTTAATAGTGTTAAAGAGAATAGCAAGTGATTTGTTTGGAAATGGTCTTATTAAGGCAGGTATGGCTTTAAGCTTTACTGATGCAAAGGAACAAGCAAAAATAGGATACCTTAGTGCTTTAACAGAACAAAATTGGATGATAATTAGACAGTTAGCTCAGTTGAATACCAATATAGAAAAACTTATAGAAGATAAAAAAGAATAAATTGAAAATAGCAATACAGACACTTACTTAAATAGTAGGTGTTTTTTTATATGGAATTTTGAGGAAGGGAGGGAAAAATATGTCCTTAGAATTAGGAACAGCAGTAGGTTATCTAGATTTAGATGGAGGGAAGTTTTTTAAAGCTCTTGC # Questionable array : NO Score: 3.48 # Score Detail : 1:0, 2:3, 3:0, 4:0.41, 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 : GTATTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.57%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.20] Score: 0/0.37 # Array degeneracy analysis prediction: R [14-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%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 95693-95070 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000013.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00013, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 95692 29 100.0 37 ............................. ATGAATTTAGATTTTGAAAATTGTAAATCACATGGTA 95626 29 100.0 36 ............................. ATAATTAAAGGCGACATCATAATCACGTATATTATC 95561 29 100.0 36 ............................. CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG 95496 29 100.0 37 ............................. AAAGAACTTTTAAGAAGAATGTTACTTGCAGGAGAAA 95430 29 100.0 36 ............................. GTTCGTCTATGTTTTGCAATAGCAGGTTTTAGTTTC 95365 29 100.0 36 ............................. TTCGAAAGCGGTAAAACAGCATTATCACTTTCAAAA 95300 29 100.0 36 ............................. TGAAAAATGTTAAGCGTAATATCAAAAATAGCGGGA 95235 29 100.0 40 ............................. CCAGTTACGTCCTTGCTAAAATCTTTTTCAACCCAAGAAT 95166 29 100.0 39 ............................. CTCAAAGTTGGACTAACTTCATCTTTTAATTTTACAAGT 95098 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTTTTTAAGGTGTTATTTTATGATTATATAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAGTCAAAAGGTAATATAGAAATCTTATCACCTTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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: F [86.7-70.0]%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 91229-90739 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000014.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00014, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 91228 29 100.0 38 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCCC 91161 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 91095 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 91030 29 100.0 36 ............................. GTAAATCTTTTAATGTGGCAAGTATAACAGTAGGGT 90965 29 100.0 38 ............................. AATGCAGCAGTAAAATATGTTGAAACATCAACTCCCAG 90898 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 90833 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90767 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGCATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAAA # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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], // Array 1 7619-7785 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000018.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00018, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 7619 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 7686 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 7753 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAGCAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGCCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : TCAGATAAATCAATTATAAGATTATATACTATCCTTATACTCTAGTTAAATATATTTTAATCACTAATATAAATTAGTTTTTTTAACAAAACAATAAAAGAGTAAAGTACAAATAATTCCTTTGTGCTCTACTCTTTTTAACTTTCTTTAGACAATAATACAATGATAAATGTAAAAAATTATATATTCCATTCTATAGAAATATGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCAGTTCATATACAAAGTCAATTTCATTGAGAAACATTTAATATATGTTTATAAAAATTTCATACTATTCTTTCATATTTGCATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGCTTGTATATTATTTATATAATCTAATATTTTAAGAAGGTGGTG # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : CTACAATTTGATTAGGATATTATCTTAATTTGT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0 Confidence: HIGH] # Array family : NA // Array 1 137418-137709 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000033.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00033, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 137418 29 100.0 37 ............................. TGTATCTCCTATCGCCATTTATGCTATTAAATACAAA 137484 29 100.0 36 ............................. CTGTTTTAAACAATTTAAGCATTGAACAAAATCAAA 137549 29 100.0 37 ............................. TTTTCAAAGCTGCTCTAAGTGCTCCATACTTTTCCTT 137615 29 100.0 37 ............................. GAATTTTTGAAATGCACTGAATACTCATTTATTACAT 137681 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 100.0 37 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTTAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGATATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGGG # Right flank : GAATGATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGGGAATTTAAGATTGCAAAGGAAATGGAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTGTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTATTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGCCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTTTGTGGAAATTTGTGGTAGAATGTAGTT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [71.7-66.7]%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 6161-5740 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000052.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00052, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 6160 29 100.0 37 ............................. GTACTCCATTTACTACACCATTAGTCAAATCTGTACC 6094 29 100.0 36 ............................. TAAAAAATACAAAGAAGAATTGTACAACGAATTTTC 6029 29 100.0 38 ............................. AAATACTTCACCAAATAAACCCCTAGTTTCTGTATCTA 5962 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 5897 29 100.0 36 ............................. TTAGTATCTGCTACAAAGTATTCTAAAGTCCATTTG 5832 29 100.0 36 ............................. TCTTGATTAAATCCGATTTTAAATGAATTAAATGTA 5767 28 86.2 0 ..................-..A.T....T | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 98.0 37 GTTTTATAATGACTATGTAGTGTGTAAAC # Left flank : TTATACTTCTCAAACATGTTCAGAGTGTGGTCATGTAGACAAAGAAAACAGGGAAACACAGGCTAAATTTAAATGTTTAGAATGTGGATTTGAAGCTAATGCAGACTATAATGCTGCTAGAAATATAGCAAAAAGTGATAAATTTGTAAAATAAAATACAATAATATATGTACGGGTGATTTAGTGTAGATGGTAATATCTCCAAGATAAAACTTGCATCCGAAGGGTGAGGGTATAGATAAAACGCATAAGGTAGTATGCCAAATATGTGCTATAACCACTCACTAAGCCGAAAAAACCCTAGTTATAATGGCAACTAGGCACACTATTAATATATAAAATGCAGTGAGCGAACTTTTACATTTACATACTTTAAGTAGTTGAAATTACTAGGGTGTAACAATTATTTTTGAAATGTCAAAAAACACTACTGGTGGTTCACTGCAATATTTTGTAAATTACATAGACAAAATCATTGCAATTACTGTGTTATATTTGGG # Right flank : TCAATATTTTGAAAGTATTATAATAATCAAAAATAAATATTAAAACAAAACTAACACTTACTCAGGTAGGTGTTTTTTTGTTGAAAGAAGGTGATTATGATATAAAAAGTAATAAATAGGTAAAATATGTAAGAATTATATGATATAATAATTGTAGCAAGGAAAATAATAATTGAAAAGTGCTAAGAGTGGTTATTTCCATATTTAAACGCCAAATTCCATAGCGGAAGGAGGTGGAACGATATGGTGATAGATTTTTTATTGAGTATACTAGCTGGTGTTATATCAGCTTTCATGTATGAGAAAATAAAAAACCACTCAAACGCCAATAAGAGTGGTTTAAAAAAATAAGTTATTTTTAATCTGATTGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTAGAAAAAATATTGCATATAATATTTTTTATAGTCAATAAAAAGATGAAATTTTTTATACAAAATAATAATGA # Questionable array : NO Score: 3.16 # Score Detail : 1:0, 2:0, 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 : GTTTTATAATGACTATGTAGTGTGTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:72.41%AT] # Reference repeat match prediction: 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: F [86.7-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 2 9738-9316 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000052.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00052, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 9737 29 100.0 37 ............................. ACGGCTTTCAGTTGTTACTAACGCATTCTCAATATGC 9671 29 100.0 37 ............................. ACTACTTTTTGAGAAGGAGTTGAACTTAAACCTAACA 9605 29 100.0 37 ............................. AACAGAAGAAACAATTTTTATTCCTCCTTCAAATACA 9539 29 100.0 37 ............................. AAGGCTTTAGAGACTGTAAGAAGTATATTTGCTCAAG 9473 29 100.0 35 ............................. GCTAAAACATTACTTGATAAAAACAAAATTACAGG 9409 29 93.1 37 ..............GA............. TTATCAATCTTAGTATTAGATGTATCTTTGTATAATT 9343 28 79.3 0 G..............A....-..TC...A | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 96.1 37 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : GGAGAATTAAGGGAAATAATAGCTGAAGATTCAATACTTAATTTTCATAGCCAAGAATTTATTGATAATATAAGGAGAAAAATAAATATAAGTAAGAATAATTTAGAAAATAATAAAGAAAAACAAATAAAATCAAATGATGATGCAATACAACAAGTGAAAGGGTTAAAAGAGTTATTAGACATGGGAGCAATAACAGAGGAAGAATTTAATAAGAAGAAAAAAGAATTATTGAATTTATAACAAGAGAAAATAAATAAGTATAAACATACAAAGCACTTGAATATTCTGTTGTTTCAAGTGCTTTATATGTTAAAAAATGGTATAATATAGGTAAGGCTTTAGCAGTGTTCGATTTTTTGAAATATTGCTTGTAGTGATTGAAATTACTATATTACAGGTATGCTTTATGAAATGCCAAAAAACACTACTGGTCGCTCACTGCAAATTTAAGAAAGCTATATATATGTAAGTATTGGAAATACTAAATTTATTTTGGG # Right flank : CTAAATAAACAAAGAAAGCACTTACTTTTGGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAAT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:83.33%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [66.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.18 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 352932-354674 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000003.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 352932 29 100.0 37 ............................. TTTCAATAACTTCTCTAGTTTTATTATAAATACGAAA 352998 29 100.0 37 ............................. TATCTTTATCAGAAGTTAAAACTAAACCAGTTGCTCC 353064 29 100.0 37 ............................. TATAGAACGTAACTATTTCAGTCTCTTTACTTTGCAA 353130 29 100.0 38 ............................. ATTTTAAATAATGAAGTTGTTTTAGATTTTAGTAATTT 353197 29 100.0 36 ............................. TACCAATAAGTTACAGCAGTAAACAGACTAACTGGA 353262 29 100.0 36 ............................. ATTTGAATATGAGATTAAGCATAGGAAAGTTAATAA 353327 29 100.0 37 ............................. CGAAAAAAACTTCTAAGAAAAAAGAAAGCAGTACTAT 353393 29 100.0 38 ............................. AGAGTTCGCTCTACCTACAACATGCACAGATTGAGAGA 353460 29 100.0 37 ............................. TGTCTCAAAAACCGTCTTTTTTTGTCCTATAAAAGGC 353526 29 100.0 35 ............................. CATCATGTAAAGAATACTTTTGTCCTGTAAAATCA 353590 29 100.0 38 ............................. ATTTTTATAGCTGTTTATAATTGGTATGGTGTTAATGT 353657 29 100.0 38 ............................. TATATAGAGTTTTATAATGATATTTATTCTCTTTATCA 353724 29 100.0 38 ............................. CCGTAACCTTTTTATTGTTGTTGTTATTGTTATTATTA 353791 29 100.0 37 ............................. GAAGCAACTGCAAGAGTAACAATTACGTTAGCGAGTT 353857 29 100.0 38 ............................. GCTATTTGTTCTGCTGATATTGAAATGAATAGAACTTC 353924 29 100.0 38 ............................. TTGGAAAATTCATAAAAATAAATTTAATTGGAGATTGA 353991 29 100.0 36 ............................. AAAGCATCAGTTTTAACTGAAGTAAGTGCAGTAGTC 354056 29 100.0 37 ............................. TTTTCTTTTTGTTATCAGTCATGAGCATCAAACACAT 354122 29 100.0 37 ............................. GAATAAAAATAAATCAATAAAAACAACCTCCCAACTT 354188 29 100.0 36 ............................. GAGGTTTACAACATTGCAACTAAATATGAGCAGGCA 354253 29 100.0 37 ............................. TAAGTTCAGCTTCTGGTATCTTTTTCATACATTATAT 354319 29 100.0 38 ............................. GGTAATGCTGATGATTTGGTTGGAGTTCCTTCTTCTGA 354386 29 100.0 36 ............................. GCTACACAAAAGAGGTAGCAGGTAAAAATGACTTAG 354451 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 354517 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 354582 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 354646 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 27 29 97.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGAAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAGCAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAATAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAACCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%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 15819-15329 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000006.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00006, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 15818 29 100.0 36 ............................. TTTAGATAGTAACTATATGATGTAATTTCTTTTTTT 15753 29 100.0 37 ............................. TTGTATTACCATGTTTAGCAAAGAATTGATTATACTA 15687 29 100.0 38 ............................. TTTGTTGTTTTCATATCTACTGATTGAAATATCTGAAA 15620 29 100.0 37 ............................. TCATAATTGACAGCGTCACCATCTATTAGCCCAAACA 15554 29 100.0 36 ............................. TAGATGAGGAGAACAGGAAAGCAATAGAGAAAATTA 15489 29 100.0 37 ............................. ATAAATATCTCTGCAACTTGCATATTTTATTTTTATT 15423 29 100.0 37 ............................. TCTTGATAATGTACATTTATTTTAATACTTTTCTCTT 15357 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : AGCACTGATTTTTATGTGGTTGTATTGTATGAGAGTTCTGGAATAGATTCATATTGGGTTTTTATAGATACTGATACATGGACTGTTCATGATATACAGCGTTTAAATCAAAATGAAGAATTAGTATCATATCATGATGTAAACCCAAATACAGAAGCAGATAAGCATTATAATAGAGATGTTGATGATGTTAATATTATATTTGTTCCATCAGAAAATAATCCTTTTGATAATGATGTAGATGGAATAAATTAAATATTTATTATAAGGAGTTAAACTATAAATTGATATAAATATTTAAAAATAATGTATTTATGATATAATAAAACTATGGAAATTTTGCAGTGAGCGATATTTATGATAAAATGGGGCTTAGCAGTTGAAATATAAGGCATTGAGGGTGTATGATAAGTGTTATCATTTGCACTACTGCCCGCTCACTGCAAATTTAAGAGAGTTGTATATGCGTAGGCATTGAAAATACTCAACTTATTTTGGAG # Right flank : AATTTTTAAATAATAGAAATAGACTAGTATTTAGCTAGTCTATTTTTTCTTTTCTTCTTTTTAATTCTTCCATTATGAATACTGCTGCGACTATTAAATAGTTAACTTCTAAACCAATTGCTAGGTCAACTATTGTTGTAACAGTAACATTTTTATAATCGCCCTTTTCTAACTTGGAAATATAACTTTTGTGATAGTTAATTTTTTCTGCGAGTTCTAATTGTGTTAAATGTCTCATTTTTCTCAGTTGTCTTAACATAAATTTAAATCACCTTTTAATTTATTTTTTAGTAAATTCAGATAATTATATTATGTGCATTTTTGTGGGGAAAAGTTTCCTATTAGTCGATTTTTTTGTTGGAAATTTGTGCTAAAATATAAGTAAGAAATAACTCTAGCTAGATAGAGAAAAAATAGAAAATTGTAGATTTTGATAAGTCTTGCAATTAAATTTATGCAAATGTAAGCACTTTTTAAAAGATAGGGGATGGTTGTAATTA # 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: F [81.7-66.7]%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 11747-11059 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000056.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00056, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 11746 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 11680 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 11614 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 11548 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 11481 29 100.0 38 ............................. CAGCTTTACATATCTATCTATGATTTTTGAATCTCCAT 11414 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 11349 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 11283 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 11218 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 11152 29 86.2 36 ......T.........G...T.......G ATTACTCTAAAAGTCTTTTTATCATTTTCTACCTCA 11087 29 86.2 0 A.....T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.5 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : GAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTGATTGGTGTATTAGCTAGTTTAACAGCTAGTCTAATCGGTTACATAGTTTGTCTATGTATCAAAAAAGTAAAAAGCCACTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAAATTTTCATTTAAGTTCAAAAAAAATAAGCATTAAATTGTTTAGAACTTCACTCTACTTCCAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : AAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAAACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTATTTTGCTCAAAATATTTTAAATCAATAGACTAAGTTCTTATTTTTAGATAGAATTATATTTGAATAAAGAATTTAATAGGGGAGAGTTCATTATGTGGGGAAAATTTAAAAAATTAAGTTTGTTGAAGAAAATTTTAGTGATATTTTTAATATACTTTGTTGTATTTACAGTATCAATGATGATTCATCAAGCGATACGAGATTCAAAAAATAGAGATGAAGTAAATGAAGGAAATATTACAAAAGAAAATATAATTAGCGAAAGAGAAAAAGAAGATATTTATAAACAAGAGATGCAAGCAAAAGTAGACTCTATGATACCAGAAGACTTAAAAGATAAAACAACATATTATGTTAACATATTAAACCCAACAAAAGGTGAGGGATATATA # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: F [75.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 31852-32080 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000009.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00009, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 31852 29 100.0 36 ............................. TGGAGCATGAGTGTAGCTGGAAAGTAACAACTACAT 31917 29 100.0 40 ............................. ACAAGAGCCTATTGACCTTAAAGGATGTTTATACACTAAG 31986 29 100.0 37 ............................. TTGTTTGAATATGAATATAAACATAGAAAACTTAATA 32052 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ======================================== ================== 4 29 99.2 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAGCAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 18095-16431 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000007.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 18094 29 100.0 37 ............................. AATCATGCAACAGTACGAACGTACAAACCATCAATTA 18028 29 100.0 36 ............................. TTTCTATATCTTGAAAATTTTGTTAATGATGTTGGA 17963 29 100.0 37 ............................. CCTGTTGTAATTCAAGCGGTCAGAGGAATAGAAATAA 17897 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 17831 29 100.0 37 ............................. CCTTGACACAACAGAATAAACATAATATATAAGCATA 17765 29 100.0 37 ............................. TTATTTCTTTCAAACTACTATTTTCATTTAACTTTGC 17699 29 100.0 36 ............................. CTTTTAACTGAAAGAATAGTAATATCAACATACAAT 17634 29 100.0 37 ............................. TTATCATTTTTTCCGCTTCTGCTTGTAATTTAGACTC 17568 29 100.0 36 ............................. TTCCCTAATGCTCCATTTTCATTATAACCTGGTGTA 17503 29 100.0 36 ............................. GTAGGTGTCGGAGAGCTAGGAAACTATAGCATAATG 17438 29 100.0 38 ............................. CGTTCTTGGAATGCTAAAACTCGTCCTTCTTGGAATAA 17371 29 100.0 38 ............................. TGATTTCATTAAATGTGTATTTGAAAATTTCTACAAAA 17304 29 100.0 36 ............................. CTGGTTATTGTCTCATCACCATTATGCTTAGGTATG 17239 29 100.0 36 ............................. CTATATGCATCTGTATAAGTTTGATGTATTTCATCA 17174 29 100.0 36 ............................. TAAGCCTCTCACAACATCTTTCCCGATACTCATAAT 17109 29 100.0 36 ............................. TTTCAATCATTGCTATAGAGCTGTTAACAATATGTG 17044 29 100.0 37 ............................. AGGAACAAATTGCTAAAAAATTAGGGGTTGGTTATTC 16978 29 100.0 36 ............................. CTGAGAAAGTTTTATTCTTTTTTAATGTTACAAATC 16913 29 100.0 37 ............................. AAATTATTCCCTAAAAAAAGTTTATTTCTTTCTACTA 16847 29 100.0 36 ............................. ATTACAGTTTCTTTATTTTTTATTATTGTACTTGGC 16782 29 100.0 37 ............................. ATAGAAAATGGCGATAAACCTGTTCGTCGATTAGATA 16716 29 100.0 37 ............................. ATAAGATACATTTAGTTTATCTATCTCTTTTTCAAAG 16650 29 100.0 37 ............................. TTTTCCTCTTCTCGCACATGGTCATTTATTACATTGG 16584 29 100.0 37 ............................. ACAATACCCCCCTATTGCAATGCTTCATTAACTATTA 16518 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [16461] 16460 29 69.0 0 AC........T.A....CAT.T.C..... | A [16445] ========== ====== ====== ====== ============================= ====================================== ================== 26 29 98.5 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAATAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAGTTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [85.0-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 322104-321613 **** Predicted by CRISPRDetect 2.4 *** >NZ_RRAY01000007.1 Clostridioides difficile strain 17-305-09913 MRSN538017_contig00007, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 322103 29 100.0 37 ............................. AAAGAAGGTGGAGAACAATATGCATGGGTAAAGTGGC 322037 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 321971 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 321905 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 321839 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 321773 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 321706 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 321641 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 98.3 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTAAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # 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: 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 //