Array 1 9519-8695 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000047.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 9518 29 100.0 38 ............................. GTTTTTTAAACCGGAGTTGTTTTGATTATTTAAATCCA 9451 29 100.0 38 ............................. AATTTTTTCACTTAATCTTCCTCCATTTTTTCTTTAAG 9384 29 100.0 36 ............................. ATTATCAAAATTTCTTTTTTCTTCTTAACACAAAAA 9319 29 100.0 38 ............................. GTTATAAGAGGTTTAAATACGATAAGAGTTAAAGAAGG 9252 29 100.0 37 ............................. GGTGGTAGTGGAGAAGCTTCATCAGAAATTACAGCAG 9186 29 100.0 37 ............................. GCTAATATGTTAAGTAAAAAATTATCCATACATATTC 9120 29 100.0 36 ............................. GTACCAGTTCCACCAACACCGGAGCAGGAACAACCA 9055 29 100.0 37 ............................. CTTATAACACTTCCTCTCTTAATTCTGCATTAAGCAG 8989 29 100.0 37 ............................. ATGTAATAGAATGCAAAATGACACAGCCATATAATGC 8923 29 100.0 38 ............................. TATGTAAAAAATAAAATAAATAAAAGTAACACTTTATA 8856 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 8790 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 8723 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.4 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGATGGGAATGGG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [6-0] 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 1 997-1420 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000046.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 997 29 100.0 38 ............................. TAACCTTTTTATTGTTGTTGTTATTCTTATTGTTATTC 1064 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 1129 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 1195 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 1260 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 1326 29 86.2 37 ......T........AG...T........ AATGGAAGCAAGATAATTTTTAAAGGTATGGATAATT 1392 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 95.6 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAATTGGAATACAAGGTATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TTAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTTGGAACACAAATAATATAATTATATTATGGAACACAAAAAGTGAGGTGAAACAATGAGTTCTAAAATGGGAAGACCAAAAGTTGATAATCCTAAAAATATTGATGTCAAAGTAAGATTTGATGAAAATACTCATAAAAAATTATTAGATTATTGTGAGAAAGAAAATCTTACTAGAACAGAAGCAATAAGAAAAGGAGTAGACTTACTTTTGGAGGAAGATAAGTAAAAAAGTAGCCCAACGCCGACCAAAGCATACTGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTA # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 2 5042-5993 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000046.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 5042 29 100.0 37 ............................. CTTTTTAAAAAAGCACGTCAATTACAATACTAAAATT 5108 29 100.0 37 ............................. TTGAAAACTGCATGTTCTTTAACAAAAGCATCTAATT 5174 29 100.0 37 ............................. GTATTACTCCCAATTATGAACATAGGATATAGTCTTT 5240 29 100.0 37 ............................. TATAGTTTGCCATATGTTCCTGGTTCGTATGATTGGG 5306 29 100.0 37 ............................. AAATTTAATATTACTGGAAAAGGAGAAATGGATATCG 5372 29 100.0 36 ............................. TTTGTTATAAGAATATCGCCACCTTCCTTTTCTGGT 5437 29 100.0 37 ............................. TTTTCTGCATCTTCTACTATGTTATATTCTTCTAATG 5503 29 100.0 37 ............................. GCACATTTAACTTCAAGTCTTAGAGTATTATCTGCAA 5569 29 100.0 36 ............................. TTCGTTCAACTTTTATCTTAGCTTCTCCTGCTACTT 5634 29 100.0 38 ............................. GTACTAGAAAATGCACTACCTGCATTCATTCCTATACG 5701 29 100.0 37 ............................. GTGCTATTTCCAACTTTTTTTTCAAGTTCTGAATACT 5767 29 100.0 37 ............................. TAGTTAGTCCCATATCGTTATGGTACTGCATTAACGC 5833 29 96.6 37 ...............A............. AGTGTAAAAGGCATTTTTTCAAATTGTGCATTGGTTT 5899 29 89.7 37 .G.............A............G GCTAATGTTTGAGTATTTAAAAGCATCTGAGCAAACA 5965 29 82.8 0 A...................AC.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 97.9 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : GAAAATAATAATCCTATCTCAATCAAAGGAGACAAGAAAAACTACTATATATTGTATAAAAATAATTAGATTTTAGTTTTTGGGGGGGTAATACAATGTATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATATATAATAAGATAGAAAGAATAGTATATAAACTTTCTGAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTATTTGGTATAAAATGGTATAATAAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTTAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TTAAAAATAATTCAAAAACACTTACAAATGAGTAAGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACGTATATAGTATAATAGTGCTATAAAATAAGTATTATGTGAGGTGATTGTTGTGTTTTGTTCAAATTGTGGTTATGAGATAACTGGTGCAGGCAAATTTTGCTCAAATTGCGGAACAGCTACATTAGCAGATAAAGTTAACAATGATGATTTATTTATAAATGTTCATGGAAAAGAATTAAATCTGACTAATATTTATAAAGAAACTAAAGGAGATAAAATCTTAGCAATTGATATTGCAATGAAGTTACTAGGGCTGGACATAAAAGAGTGTAAAAATATTATATATCCAGCTTTTAAAGAATTAAGTGAAAAAATAAATATCGAAGAGGAAAAAGAGATATTGAGGGAAGATGAGTATAAACAAACTAATGTACTTGAAGATGATGTTGCTCGTTGCCCTAGGTGTGGCTCTGTTTCAT # 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 : 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: 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: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-76.7]%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 5707-5546 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000028.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5706 29 100.0 37 ............................. TTACTAAACATCTTATAACTTCTCTGAGAGCCTCTAG 5640 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 5574 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGGAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCAATATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGA # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAAAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : 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:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 61308-60158 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000025.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 61307 29 100.0 37 ............................. AGCAGTTAAAGTTGCAAACATCAACTTAACAGGAAAA 61241 29 100.0 37 ............................. TCCAAAATTTTAACTTTTTCTTTTTCTAAATCTTTAT 61175 29 100.0 38 ............................. TTTAAATTATAAAAAGTATACAAACGAAAATTATCAAC 61108 29 100.0 36 ............................. TAACCTCTCCTGTACGTTTATCTATGTACTCATTAG 61043 29 100.0 36 ............................. CTCTTTAGCGCTTCTTCAAGTTGTATTTGTGTATAA 60978 29 100.0 36 ............................. TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA 60913 29 100.0 38 ............................. AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC 60846 29 100.0 36 ............................. TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT 60781 29 100.0 37 ............................. CTTTTTTTATTAGTGAAAGGGGGTGGTTAAAATTAAA 60715 29 100.0 37 ............................. TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA 60649 29 100.0 40 ............................. GGTTTTAAAGACCCAGCAACGATAAAACAATATGTTGCAA 60580 29 100.0 35 ............................. TGAACTTTAATCGGTTTTATACAACAATATAACGC 60516 29 100.0 38 ............................. AATGAAGGTATAATAAAATTAACAGAAGAAACAAGAGA 60449 29 100.0 37 ............................. TCACACATGAGCAATATCGAAACAGGCAAATCTACAG 60383 29 100.0 36 ............................. TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT 60318 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 60252 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 60186 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================== ================== 18 29 99.8 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 : 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 2793-3473 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000021.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2793 29 100.0 37 ............................. CTGACTCGGGAGCATATAATAAGTAATATCAAGAATA 2859 29 100.0 37 ............................. TTCGTAAAATAACAATTGTCAGGAATATGAGAAGTTT 2925 29 100.0 34 ............................. TTGGACTCAAAATATAAGTTAAAAAAATTTTTAA 2988 29 100.0 36 ............................. ATTTTTGACGCTATGAAGAAATTTACTACAAAATTT 3053 29 100.0 36 ............................. ACTTTTTTCATCCTCCCAAACCTCTTGTTCGCTGTC 3118 29 100.0 38 ............................. AAGAAAATAAGTTTAAAAAAAGGTTTCATTATTATATC 3185 29 100.0 36 ............................. CCAATTATGTACAGTTTAGTTACTGTGTTAAGTCTT 3250 29 100.0 37 ............................. TCCTTTTATAAATATCTTCTGACATGTGTATATGCTT 3316 29 96.6 36 ............................T CGGCTACAACGGTATAAATTAAATTTAGCAGGGTAC 3381 29 93.1 36 A...........................T TGCTGTGATTTCAATAATAAAACAATTAATAATTGT 3446 28 86.2 0 ................G...-..TC.... | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.8 36 GTTTTAGATTAACTATATGGAATGTAAAA # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : ATTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAG # 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 : GTTTTAGATTAACTATATGGAATGTAAAA # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] 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: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 254203-252539 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000001.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 254202 29 100.0 37 ............................. AATTTTTTCGGATATTTAATAATTTATTTTAAATTTA 254136 29 100.0 36 ............................. CTCAACAGTATCTACAAGAACTTCTATATCTTCTAA 254071 29 100.0 36 ............................. TAATTTAGGGTAACTTTTATATTATTTTCTTCTATC 254006 29 100.0 37 ............................. TTGGTTGATATAGATATTAGTCCTATTATTTCTGCTT 253940 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 253874 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 253808 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 253743 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 253678 29 100.0 38 ............................. ACCATTCATTTATATTTTTATCTGTATCTCTTAGCCAT 253611 29 100.0 34 ............................. TAAGTTTTCTTAAAAAAGTACTTGCTTTAAATAT 253548 29 100.0 37 ............................. TTTATTTTCTCTTTATTAGTCATTAGTTTTTGCCTTC 253482 29 100.0 37 ............................. ATGAAGAATTTGCGAAACTAATAAGAAAAGATATTGA 253416 29 100.0 36 ............................. CTTTCTTTATCAAAGTAAGCTAAATTTAGTTCCTCC 253351 29 100.0 36 ............................. CGTCATTACTTTTTATTGCTTCCATTAAATTTGTTC 253286 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACAAACAGTCTTACCGCAA 253220 29 100.0 37 ............................. AAATATTTTACGATTAGTTGATGCTATAATTCTATTA 253154 29 100.0 36 ............................. TCTTTTGATTTAGCGTTGTTTGTCCGGAATTTTAAA 253089 29 100.0 37 ............................. TCGGGCTAGAATGTATTTTAAACCCTAGTTCATTGAA 253023 29 100.0 36 ............................. TTTCTAATATCGCTATTTAAACTCAATGCTTCATTT 252958 29 100.0 37 ............................. TCAGAACAAATTAAATATGTTTCGTTTTCCATGTAAG 252892 29 100.0 38 ............................. AGAACTTTTTTATATTAGAAGTACTTGACATGATTGCC 252825 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 252762 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 252696 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 252631 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 252567 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 26 29 97.8 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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: 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 [17-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-75.0]%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 1 44514-44871 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000012.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 44514 29 100.0 37 ............................. ATTTTTTTTATATATAAACTTCTAAACTTTTACAAAA 44580 29 100.0 37 ............................. ACACTTCCAACAAGCATTGTAGGGTTGAAGTCTACAG 44646 29 100.0 37 ............................. TAAATCGTATTTATAATTATATCTACACTTAGTAAAT 44712 29 100.0 37 ............................. CCAATAGACCCTCCAATAACTCCAGATATTCCTTCTG 44778 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 44843 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAATTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [68.3-75.0]%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 91496-90871 **** Predicted by CRISPRDetect 2.4 *** >NZ_FACR01000002.1 Clostridioides difficile isolate VL_0165, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 91495 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 91430 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 91364 29 100.0 35 ............................. CCTATATTACTTAAATTATTACTTAAATACTGATA 91300 29 96.6 37 ............G................ TATAAAACTTCTTGCATCTCTGCATTAAAAAAAGACT 91234 29 100.0 38 ............................. ATAAGGAAGAAGAATAAAAAGGGGATGTTTTTATGGAA 91167 29 100.0 38 ............................. TTATTATTATAATGGTCATGTATATCAAGTTTAGTAGC 91100 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 91034 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 90965 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90899 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 95.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # 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 : 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 [11-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-66.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //