Array 1 860-1280 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000002.1 Clostridioides difficile strain H3 contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 860 29 96.6 37 A............................ GTTGCGACAAAAGCATGATAAGACTTGTTGCCCCCAA 926 29 100.0 38 ............................. ATCGTCTATGATGAAGTAACGAATTTGTATTGGTTTGA 993 29 100.0 36 ............................. CCTTTTACATTAAAAATAGAAATTGTGTTAAGACTT 1058 29 100.0 37 ............................. GATTGTAAACATTTCAGCCGAGCAAAAGGGAAAACAC 1124 29 96.6 36 ............................G AAGCACTTGCGACTGTTTCCCAAAGAAGTTACCTTC 1189 29 93.1 36 ...............A............G CAACAAGAACATTTGATTTTACCTTTTCTAGCCAAC 1254 27 86.2 0 ....................-.-.A...A | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 96.1 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATATTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAGTTGTAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGTGTATGTGTAGGTATTAGAAATGCTAAGTTTATTTGGGG # Right flank : ACTAAATAGAAAAAAGAAGCACTTACTTTTTGGTAGGTGCTTTTGTTTTGCTTATAACTTTTCATCATCTTCATATTCCATAATATCACCTGGTTGGCAGTTTAAAGCTTTACATATTTTATCAATTACATCAAGTGAAACATTTTTATTTGAAGATAGTTTGGCTATTGTAGTAGAAGAAGCTCCTATTTTGAGTCTTAGTTCTTCTTTAGTTATACCTCTTCTGTTTAGTAAGTCAATTAGTTTAAAAAATTTTATAGACATGTTAATACCTCCTGTATATTTATATAATACTATATATCTTTATTAAAGTAAAGAAATGTTTATTAAAATAAATAAAAACTATTGACATTATTTACTAAATAATTTATTATTAGAGTATAAAGATAAAGAAATCTTTATAAAAATAAAGACGAAAAGGAATAAAATAAGGAATATTCTCTCTCGTCAAAGTTTAAATATTCCTTATGACATATAACTAATATGTAATATAATTATAT # Questionable array : NO Score: 5.91 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.85, # 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [65.0-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 2892-3511 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000002.1 Clostridioides difficile strain H3 contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2892 29 89.7 36 .AG.........................G ATATTAAATGAGTTAACAAAGAACTCTACAAATGCC 2957 29 89.7 37 A..............A............G CTAATGATTAGTAATCAACAACTTAATTTTAAATATG 3023 29 96.6 36 ............................G GCGAAATGGGAGGAAGTAAATTAAATAACTTTGCAA 3088 29 89.7 37 A..............A............G GGAGCTATGTTTAAAGCTTCTAGCATCTTAAAATATT 3154 29 93.1 36 A..............A............. AGTCCAGATACGACTAGGCAAAGTTTGGAAAAATAC 3219 29 100.0 38 ............................. GTAGTGTTAAAACAAAGTACTTTTGATGTTGCTGTAAA 3286 29 100.0 37 ............................. AATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG 3352 29 100.0 36 ............................. ATATGATATTTGGTCAGACATTAGGAAAAATAAGTG 3417 29 100.0 38 ............................. AGTACTATCCATGTTAAAGGGCAAGCATACAATGCTGC 3484 28 86.2 0 ....................-.CT....A | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 94.5 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TTTATGGCAGTTAAGCAAATTATAAGAAAGCTTGATATTAAAGAAGATGAAATGAAAACAGTACTAGAAACGAATGGCAATTGGACTGGTACTGTAACCAAATATTCTAATAAGGTTACAGAAAAAGTAAAAGAGTGGTTGAAAGAAAATAATAATCCCATTTCTGTTAAAGGAGACAAGAAAAACTATTATATATTGTATAAAAATAATTAGATTTTAGTTTTGAGTTTGAGGGGGATTAATAAAATGCGTGAAAGTTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTGAAGTTTGCTAATGCGTTATATGAACTAAAACAGAATAGTGAAGAAAAGTTTCAAGAATATGCAGAGATACTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAAATAATATAGATAAAGCACTTGAATATTATGATGTTTCAAGTGCTTTGTTTGTTAAAAAATGGTATAATAGAGATAA # Right flank : ATTAAAAATACTGAAAAACACTTACTCAGGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTGATATAGTATAATAATCCTATAAATTCATTATAATAAAGGGGGATATTATGGGATTATTTAGTGGAAATGAAAGTTGTTGTATATGTGGAGAAAAAGGTAAACAAAAAATATCTGATGGTGTAATATGTTCTGAATGTTTAAAAAAATATAAAGATACATTTTCTATAGTCGAACCAACAGATGTAATTAAAAAAATATCTTCTGAGGAAATAAAAAAATCAATAAGATTAACACTTGAAAATAAAAAAAGATTTGAATCTTTTAACGCAAGTAAAAAAGTAGGAATTTATTTATTAGTAGATGAAAATAAAAAACAATTAATTATATCTGATAAAATAAGCAATTTAAATAAGAATAAGAGAGTATATGACTTTAGGGATATTATTTCATTTGAACTTTTAGAAGATGATGAATCTATAA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : TTTTATATTAACTAAGTGGTATGTAAA # 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [3-3] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 147332-147692 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000033.1 Clostridioides difficile strain H3 contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 147332 29 100.0 39 ............................. GAAGTTAGAAGAGGAACACACTTACTTTTAACTTTCATA 147400 29 100.0 38 ............................. ATTTTTATGTGTCTTATGCTTATGACAGACAATAAAAA 147467 29 100.0 37 ............................. TCTTTTTACAACAATGATATTACTAGAAAAATACAAG 147533 29 100.0 37 ............................. TTTTGTTTAACGTTGTATGGTCAGCATTAAAATGTAT 147599 29 100.0 36 ............................. CACTTGGAGTGTCCAAGCCCCTTTCACAGAAAGGAG 147664 29 96.6 0 ......................C...... | ========== ====== ====== ====== ============================= ======================================= ================== 6 29 99.4 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATGTTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTACAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-73.3]%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 172289-171734 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000047.1 Clostridioides difficile strain H3 contig_47, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 172288 29 100.0 37 ............................. TTGGAAGATATATGTTAATGATTTATATAAAAGAAGT 172222 29 100.0 37 ............................. AAAATAGTTTCTAACATAAAATAAAATCACTCCTTTA 172156 29 100.0 37 ............................. AGTCAAAACTCAAAACCTCAACATGATGATTAAAATG 172090 29 100.0 37 ............................. CCATATAAAGCCATTCTTTGAACCCTTCGGGACTTTC 172024 29 100.0 36 ............................. GCAGTAACTTATTAAAATATCATCATGACATGAGGA 171959 29 100.0 36 ............................. TCAAATAGCTGTCTTTTGCTCCTATTACGTCCTCAT 171894 29 100.0 36 ............................. TTTTTTCTGCTAATTTTTTACGATTAGCCATAGAGC 171829 29 100.0 38 ............................. CCGTCTTTTGTTGCTTTACATAAATTTATATTACTTAT 171762 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 9 29 98.9 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAATACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAAACAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 174564-174140 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000056.1 Clostridioides difficile strain H3 contig_56, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 174563 29 100.0 37 ............................. TGTAGAAGAAAAGGGTATTGATGGAAGTTTTAATATT 174497 29 100.0 36 ............................. TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA 174432 29 100.0 38 ............................. AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC 174365 29 100.0 36 ............................. TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT 174300 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 174234 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 174168 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 99.5 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 12638-12213 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000065.1 Clostridioides difficile strain H3 contig_65, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 12637 29 100.0 37 ............................. TATACAATAGCACACAAATAGTCTGCTCCTTCGTCTG 12571 29 100.0 37 ............................. TTGGCATATCTCCACTTACATCCATTGCCCTATATCC 12505 29 100.0 38 ............................. AATAGGTGCTTTTGAAGTAACATCAAAAAAATCAAAAA 12438 29 100.0 37 ............................. CGGTGTATAATCTATCGCATTTACTACAGCTTTATTT 12372 29 100.0 37 ............................. AGTGTTTAGTCGGCTACCCCTGTACTCTGTCGAGCCA 12306 29 100.0 36 ............................. GATAGCAAAGCTTGCAAAGTAGATATTTGTGTTTTT 12241 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 99.5 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 361646-361096 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000065.1 Clostridioides difficile strain H3 contig_65, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ======================================= ================== 361645 28 100.0 38 ............................ ATTCGTAAAATAACAATTGTCAGGAATATGAGAAGTTT 361579 28 100.0 35 ............................ ATTGGACTCAAAATATAAGTTAAAAAAATTTTTAA 361516 28 100.0 37 ............................ AATTTTTGACGCTATGAAGAAATTTACTACAAAATTT 361451 28 100.0 39 ............................ AAAGAAAATAAGTTTAAAAAAAGGTTTCATTATTATATC 361384 28 100.0 37 ............................ ACCAATTATGTACAGTTTAGTTACTGTGTTAAGTCTT 361319 28 100.0 38 ............................ ATCCTTTTATAAATATCTTCTGACATGTGTATATGCTT 361253 28 100.0 37 ............................ TCGGCTACAACGGTATAAATTAAATTTAGCAGGGTAC 361188 28 96.4 37 A........................... TTGCTGTGATTTCAATAATAAAACAATTAATAATTGT 361123 28 85.7 0 ................G....T.CA... | ========== ====== ====== ====== ============================ ======================================= ================== 9 28 98.0 37 GTTTTAGATTAACTATATGGAATGTAAA # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACATAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAGGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCCCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 : GTTTTAGATTAACTATATGGAATGTAAA # 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: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] 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 453133-454924 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000044.1 Clostridioides difficile strain H3 contig_44, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 453133 29 100.0 37 ............................. TCAGAAATAGAATCAATATTTTTCAAATTAACTCTTA 453199 29 100.0 35 ............................. AGGTAGAGAGAAAGGAAACTTCTCCTTAAAATTAT 453263 29 100.0 36 ............................. GTTGATGTCTCTCTAGTACCTTCCACAGTTTCTAAA 453328 29 100.0 38 ............................. AAAGAACCTCTTTTTCTGTTTCATCAACTGTGTTTAAT 453395 29 100.0 36 ............................. GCATATATATATATCATTAAAATAAGTTTTAAAGTC 453460 29 100.0 36 ............................. AGAGTTTTATGGGAGAATACAAATAATCCGAGTTGG 453525 29 100.0 36 ............................. GCGACAATCCCACTATTAGCAGATGTCGCAATAGGA 453590 29 100.0 37 ............................. AAAAATCTTTTGGTAACTGCTGCTTCTGATTCTAGTA 453656 29 100.0 37 ............................. GGGTATTAATGGGAGCAGGATTTAATACATTAGACGA 453722 29 100.0 36 ............................. AAAAATTTTCAGAATCTTTTTAACAACTTTTACAAC 453787 29 100.0 36 ............................. ATATTATATGGAATTTGTTTAAACCATTCGACAATA 453852 29 100.0 37 ............................. AAAACTGGTGTTGACAATATCCCGAATATATTTTTAA 453918 29 100.0 37 ............................. GCTTGTTTGACTAAGTTAGTCCCCCAACTTATAACAT 453984 29 100.0 36 ............................. AGCGTTAACATTAAATAAATAGGTATAGCTAAATCA 454049 29 100.0 36 ............................. TGTATTATTAATCGTCTTTTTAATTATAATTTTTTG 454114 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 454180 29 100.0 36 ............................. TCCAAAACTACAGGTTCGTAGAAATCTTCCCAATGT 454245 29 100.0 37 ............................. TATTTCAGGTGTAGTATTGTATATACCAGTTTCATTT 454311 29 100.0 37 ............................. ATATCTTTTTACAGTTAACCCGTTCTCATTTCTTCTG 454377 29 100.0 36 ............................. AATAGACTTTCTCAAAATAAAAAGGCAATTAAAATC 454442 29 100.0 36 ............................. ACTGTTATTTTAGCAACACTTAAAAATTTACAGGAC 454507 29 100.0 36 ............................. AGAACTTCATCTATCGCAATCGAGCTTTCTACAATA 454572 29 100.0 37 ............................. ATAAGTAAAACGGGTCCGAGCGCTGCTGCTAATCCTG 454638 29 100.0 35 ............................. CTAAAGCAACTAAAGCATATGATTTATCTAACAAC 454702 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGGCACAGTGTCAG 454768 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 454832 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 454896 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 28 29 97.7 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGATATAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTATACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATTATGATTAC # 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 [0-19] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-81.7]%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 3527-3302 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000071.1 Clostridioides difficile strain H3 contig_71, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 3526 29 82.8 35 AAA............A............G GGAGTAGGCAAGTTTTATAAACAAATAACAGGAAG 3462 29 96.6 37 A............................ TATATGGTGCTTTCCAGTCTTGTGGTTTTACAGGTTC 3396 29 100.0 37 ............................. GCGTTTAGGAATATGACAGCATCTATTAATACGACAA 3330 29 86.2 0 ....................AC.TA.... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 91.4 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ATTGATTTAGAAGATAGTGAAGTTAAGGGAGTTTGGGAGACTAATGGTTCTTGGACTGGTACTGTAAATAAGTATACAGAAAGTGTAATAGATAAGGTTAGTAAATGGATAGAGGAAAATAATAGACCTACCAAGATTGCAGGTGAGAAGAAGAATTTCCATGTGGTTTATAAGATTGAGTAAATTTATCAGTTGTATTAAATAATTTAGTTTAGTTTATTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAATATTTTGTGAAATTTGCTAATGCGTTATATGAACTAAAACAGAATAGCGAAGAAAAATTTCAAGAATATGCAGAGATACTAAGAGAAATACTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAAATAATATGGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTATTTGGTAAAAAATGGTATAATATAGGTAGG # Right flank : TAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATTGTGCTAGGGGGATTTGTTATGTTTTGTTCGAATTGTGGTGCAGAAATCACAGGCGTAGGCAAGTTTTGTTCAAGTTGTGGGGTTGCTGTAGAAACTGAAATTATTGAAGATAATAATATTAAATCAAATGACCTAATCGTTGATGCAAATGGAATAGAAATAAATATGACTGAAATTTATAGAAAATATAGAAAAGAAAAAGTAAATGCAATAAAAAATGTAATGGAAATAAGTGGTTTGAATATAAAGGAAGCAAAAAAAATAGTGGATTCTTCCTTTGAAGAGTTAAAAATCAATTTTATTGATGATACTATGAGCAATTCAGAAAAGGAAAAAATAATAAATACTCAAAATAGAAAAAATAATATTGAAAAAGCTCAACAAGAATCA # Questionable array : NO Score: 3.62 # Score Detail : 1:0, 2:3, 3:0, 4:0.57, 5:-1.5, 6:0.25, 7:0.01, 8:0.6, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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:80.77%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 5811-5123 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000071.1 Clostridioides difficile strain H3 contig_71, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 5810 29 100.0 37 ............................. CAACTAACTAACTGATTTGCACAATCAATATTTACAA 5744 29 100.0 37 ............................. TGTCTGTAACAGCTATATTTTTAGCCTCTTGGTAATC 5678 29 100.0 38 ............................. CCAGGGTTGCTCCCACCACTCTCTAGTATTATTTGAGC 5611 29 100.0 38 ............................. CCCTATGATTTGCCGATTTCTGGGACTGTTACAGTTCC 5544 29 100.0 38 ............................. GAATTAGTAGAGTACAAAAATTTAAAGTCAGAATTTAT 5477 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCTTTACCAATT 5412 29 100.0 37 ............................. CAGTCTATATCTATAATTCCTTCTTGTTTATATATCT 5346 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 5280 29 86.2 36 ......T.........G...T.......G GGAACATAAGGTAAATCATAAGAAACTCCAACAAGA 5215 29 82.8 35 A.....T.........G...T.......G ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 5151 29 79.3 0 A.....T.........G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 95.3 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTTGGTCGGTTGGGTAAAATAGTTAGAAAAAATTGGGATAAGTTATTGACTTTTGTCTGCCGAAACTATATAATATAATTAAGGCAGACAAAAGTGAGGTGAAGATATGCCAAGTAAAAAAATAGGTAGACCTACAGATAATCCTAAAGGCAGTAGAATAACTATAAGATTAGATGAAGAATCTAAAAATATTCTAGAGAAATACTGTGAAAAAGAAGATATAGACAAAGCCGAAGGAGTTAGAAGAGGTATAAAACTACTAAAAGACAAATAAAAAGTAGCCCAACCGCCGACCAAAGCAAAATGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTAGGAATAAAAA # 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 : 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 [15-0] 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 1 125138-125959 **** Predicted by CRISPRDetect 2.4 *** >NZ_JFOI01000009.1 Clostridioides difficile strain H3 contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 125138 29 100.0 38 ............................. TTTAATATTATCATGTTTCTTGTTACTCTTACTTTATC 125205 29 100.0 38 ............................. CACATATGCATTTCCAAAATGATTTCTGTTCTGCTCTA 125272 29 100.0 38 ............................. TAAAATCTTGCATAGAAAAACATAAAAAAGATTGGACT 125339 29 100.0 37 ............................. AACATAAAACTTCCCTTTTCTTTTTTGTTAGTACACA 125405 29 100.0 37 ............................. ACTTTATTATCAGCTAGTCTGTATCCTTTTATCTGTT 125471 29 100.0 37 ............................. GACTTTAAGCACTCTTTAACTTCGCTTTGGCTTAATC 125537 29 100.0 36 ............................. CGAAAAAATTCTTCTATTTATAAATTATATAATAAA 125602 29 100.0 37 ............................. CCGCAAGGTCAAGAACAGACTGCAAGACCTGTTGGAA 125668 29 100.0 35 ............................. TGTATATGTGCATAATTTAGATTTTGACCTTGCAA 125732 29 100.0 37 ............................. GTTCTTGAATCATGTACTCCTATTAGTATAATCAATT 125798 29 100.0 38 ............................. TGTGATTGCTCAGCCTTCTTTTTCAAATTACAAAGTTG 125865 29 100.0 37 ............................. AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 125931 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 97.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTGTTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCGCTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTATCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTATATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGTTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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 : 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-76.7]%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], //