Array 1 249432-249927 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000003.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 249432 29 100.0 38 ............................. AGTATTTCAGCAATTTTACTTTTAATAACTTTATCAGC 249499 29 100.0 37 ............................. TCAATTTACCGTTTTTTTCAAATCTCACAACATCAGA 249565 29 100.0 37 ............................. CTATCGGCTTCTTGAAAAGCCTCATCTGCTCTATTTA 249631 29 96.6 37 ......C...................... TTCATTAAATCCCCAACCGAATTATCTTTCAGCATTT 249697 29 100.0 39 ............................. CATGCTGATAAGAATCTCTATGAACTTCGGAGGGAACCG 249765 29 100.0 37 ............................. TTGGGTATTTTGCTAAAAATAAAGCTATTAAATTAGA 249831 29 96.6 39 .C........................... CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 249899 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 8 29 99.2 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 496104-496589 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000003.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================ ======================================= ================== 496104 28 100.0 38 ............................ ATTCGTAAAATAACAATTGTCAGGAATATGAGAAGTTT 496170 28 100.0 37 ............................ AATTTTTGACGCTATGAAGAAATTTACTACAAAATTT 496235 28 100.0 37 ............................ AACTTTTTTCATCCTCCCAAACCTCTTGTTCGCTGTC 496300 28 100.0 39 ............................ AAAGAAAATAAGTTTAAAAAAAGGTTTCATTATTATATC 496367 28 100.0 37 ............................ ACCAATTATGTACAGTTTAGTTACTGTGTTAAGTCTT 496432 28 100.0 37 ............................ TCGGCTACAACGGTATAAATTAAATTTAGCAGGGTAC 496497 28 96.4 37 A........................... TTGCTGTGATTTCAATAATAAAACAATTAATAATTGT 496562 28 85.7 0 ................G....T.CA... | ========== ====== ====== ====== ============================ ======================================= ================== 8 28 97.8 38 GTTTTAGATTAACTATATGGAATGTAAA # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACATAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAGGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCCCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # 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 : 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: F [0-5] 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 129320-130406 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000001.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 129320 29 100.0 37 ............................. TACTGAAACCCAGCCATATACATATTTACATACTCCA 129386 29 100.0 39 ............................. TCCATTCTTGCATCACTTGCTCCAGTAGTCATAACAACA 129454 29 100.0 38 ............................. CATTATTGTTGCTGAATAAATCCACTTCTCATTCTCAA 129521 29 100.0 38 ............................. ATCGTAAGAACCAGGAATATACGGAAGATCGTAGAAAA 129588 29 100.0 37 ............................. TTTTTTGTTTTTGCTTCATCTTTTTTATCTTTATTCA 129654 29 100.0 37 ............................. AAAATTGCTGAAACAATAGTGATAAGAGAAGATGCTG 129720 29 100.0 36 ............................. TTTTTATTCTAAGAAACTTTTCAATTCTAGTTCTTC 129785 29 100.0 37 ............................. TTTGAAAGTTGTAATATAATAGATTAAAAAACTAATT 129851 29 100.0 37 ............................. TTAAACTTTCGAACAGCAGTAACAAGAATCTTATCAT 129917 29 100.0 36 ............................. GCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 129982 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 130047 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 130113 29 96.6 37 ...............T............. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 130179 29 96.6 38 ...............T............. AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 130246 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 130312 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCGCTTTGAAATTT 130378 29 93.1 0 .......G.......T............. | ========== ====== ====== ====== ============================= ======================================= ================== 17 29 98.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAATATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACCTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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 : 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 436446-436288 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000001.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 436445 29 100.0 35 ............................. TGAAAATTTAGTTAAAAACTGCATCAAAGTATTGA 436381 29 100.0 36 ............................. GATAGCAAAGCTTGCAAAGTAGATATTTGTGTTTTT 436316 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ==================================== ================== 3 29 98.9 36 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCATCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # 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 [75.0-68.3]%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 81416-81188 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000002.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 81415 29 100.0 36 ............................. TCAGCACTTGTTGTGCTACCGTTTTTTAATAAACTA 81350 29 100.0 38 ............................. TTTATTGAATCTTTCAAAGTCTCTATAAAGTTTTTTAG 81283 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAT 81216 29 93.1 0 .................C.........G. | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 98.3 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACCATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAGGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCGTACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : 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 [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 2 192054-191761 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000002.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 192053 29 100.0 38 ............................. GAACTTGCGAATGTTGTTGCAACTCTTGCTGTTGCTAG 191986 29 100.0 37 ............................. TAATTCACTTCTCAATTGTTTATATGTTTTTCTTGAA 191920 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 191855 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 191789 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 5 29 92.4 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATTCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTTCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATACCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGCTAAATGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 5.68 # Score Detail : 1:0, 2:3, 3:0, 4:0.62, 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 : 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: 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 3 447682-446531 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000002.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 447681 29 100.0 37 ............................. TATAGAGCTATAGGAATTGATATAAGCCCTATAAACA 447615 29 100.0 37 ............................. TGTTATTACCTCCTTATAATTTATTAGCTTGTTTCAA 447549 29 100.0 36 ............................. TTTAGTAAAGTTACATTTAAAACTATCAAAACACAA 447484 29 100.0 37 ............................. AGGTCGGGAAATCGGCAACATAAAAGAAAATAGTATT 447418 29 100.0 37 ............................. CCGAATTGGCGAGATAAATGGACAGAGTTTTATAAGG 447352 29 100.0 38 ............................. ACCAAAGCAGCAATTTTTACTGTCTTAGTCTCTTGTAT 447285 29 100.0 37 ............................. GCAACTAACCCTATTTGGTAGCATAGCATGAACTCAA 447219 29 100.0 36 ............................. ACATTGCACGAATATTGTATGAATGAATTAGGTATT 447154 29 100.0 38 ............................. TAGGATATAGAACGAAAGGTACGGACGGCAAATATAGA 447087 29 100.0 37 ............................. ATAAGTAACAGCAGTAAACAAACTAATTGGAACAAAT 447021 29 100.0 38 ............................. CCTTGTCTTAGCAGCTTAAGAAGTAAGTCGTTTAGTGA 446954 29 100.0 36 ............................. AAGCAACATAAAATTGTACCTCATAAACATGATTGG 446889 29 100.0 39 ............................. CATAACCTTCCATGTCAGAGTAGCTGACAATTCTATCAT 446821 29 100.0 36 ............................. ACGTTGTGGGAGCGTAACCCACCAATCCTATTGGGT 446756 29 100.0 36 ............................. TTAATAAAACTGATAGTAAAACTACTAATAATAAAG 446691 29 96.6 39 .................A........... ACTTTTAAAAATTATTTAGCGTTATATTGCTGCATAAAA 446623 29 100.0 35 ............................. AAATGTGAGGAAGTATGGATGATAATAAATAGCAA 446559 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 18 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACGTAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAATTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTGTACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTGA # 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 : 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: 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 [1-0] 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 5625-5960 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000019.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 5625 29 100.0 37 ............................. CCACCTTATAGAACTTCAATGTTTTTATTAGTTCCAT 5691 29 100.0 37 ............................. TTATAATAAAAAATGATAATACAGTCTGGGCGTGTGG 5757 29 93.1 13 ..........................TG. TAGTTAGAAACTT Deletion [5799] 5799 29 100.0 38 ............................. ATACTAGGTCGACATTTCTTTTTTCTATATTATCTTTG 5866 29 100.0 37 ............................. ATAACTAATACATGGGAATATACAAATGAAATAACTA 5932 29 86.2 0 ................G....C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 96.6 33 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAATTGGAATACAAGGTATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGATATTGGAAATACTAAGTTTATTTTGGG # Right flank : TTAAAAATACTGAAAAACACTTACTCAGGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTAATATAGTATAATATTGGTAAAGAATATAATTTAGGGGGATATTATATTATGTGGAATAAGTTTAAATCATTAAACACACTTAACAAAATCTTTTTTGGTATAATTGCTTTTGTTATATTTCCAATAACAATAACTGCATTTCTAGGGGAGCTAAGTATAAAATTATTGTCTAATGGATTTAAAAATAAGAAAAAACTAAAAATTATAAGTGGATTTATTGCAGCATATTTTTTTATAGCATGTGCCACATCAACATTTTTAATTTATAAGGATTCATTTAAAAATAGTTCTGAAACAGCTAAGATGAGTACTGGAGAATCTGAGGTGCAAGCAGATAAAAATATCGATAGCAAAGATAAAAAAGACGTTAAATTGTCAGAAGACGAACAAAAAATATCTAAAGTTACAAACTTAGCTCCAG # Questionable array : NO Score: 5.72 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:-0.36, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 250636-247913 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUPJ01000004.1 Clostridioides difficile strain VRECD0146, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 250635 29 100.0 38 ............................. TTTTTAGACTTAGAGTTATACAAATCAGAATTAATAGG 250568 29 100.0 36 ............................. AAATATATAAGTTTGTCGTCGACCTGTCCCATGCCT 250503 29 100.0 37 ............................. TTACAATTATAGTATAACAAAAAATAAAAAATGTAGC 250437 29 100.0 37 ............................. TAAAAAGTTTAATATAAATATCTTCAGCCATATGCAA 250371 29 100.0 36 ............................. AAAAACAAAAGGAGTGGTAAAATGGCAAAGAAAAAA 250306 29 100.0 37 ............................. GTAACTATTATTATTAATATAGAGTTTGAAACAAAAA 250240 29 100.0 37 ............................. AAATTTGCAAGGCTAAATTGCCCCTTAATTAATGGTG 250174 29 100.0 36 ............................. TATAAATAAATAAACAAAACCAAAAAACAATTTTTT 250109 29 100.0 39 ............................. AGCAACTAAAGTTGATAAAATAAGTTTAATAGGAATAAG 250041 29 100.0 36 ............................. CGGCAAACTAAAGGGAAATTTAGTATTAATATTAGT 249976 29 100.0 36 ............................. CACAACTATACAAATAAAAGTTTGAATAGGCAAAAA 249911 29 100.0 37 ............................. ATAGTGGAAAAGAGTTAATTGCAACTGCTATCGGCTC 249845 29 100.0 36 ............................. TCAATTATGTAATGAGATTGACGAAGAAAAAATTGA 249780 29 100.0 37 ............................. ACACTTCCAACAAGCATTGTAGGGTTGAAGTCTACAA 249714 29 100.0 36 ............................. AGGGTCAAACCCAATCCATGAAATATAAATGTCATA 249649 29 100.0 36 ............................. CTTTAGTTTCAATTGCTAACGTGCTAGGCGTTTCAA 249584 29 100.0 38 ............................. TAATTAGCGTGAAAATAGAGGTCTGATTTTCTTTTTTT 249517 29 100.0 37 ............................. TGCGTTGCAATGTAGAATCATTAGTTTAATAATACAC 249451 29 100.0 37 ............................. TTAAGTATTAAAGAACACATAAGATTATTCATTGAAA 249385 29 100.0 37 ............................. AAGCGTAGACCAAGTCCTAGCATAAAATAAATAGGTA 249319 29 100.0 35 ............................. AGGTTATACACTCCAAACTTCTCTCCTGTATCTCG 249255 29 100.0 36 ............................. ACGAAAATTAAAGAGCTTACTAAAAATGCTATTGTA 249190 29 100.0 37 ............................. TTGGCAGTATATGACACTAATAAAAATGTGCAAAATA 249124 29 100.0 36 ............................. TTTGTTGACGCTGAACTAATCGAACATGTTGCTTTG 249059 29 100.0 37 ............................. TTGCATTTGCTGCGATTTCTCCACCTTGTGCAAATCT 248993 29 100.0 37 ............................. TGAATTTGGCGAACTCGATATAAAGAAAAAAATAAAG 248927 29 100.0 37 ............................. ACTGACTTGCACAATCAATATTTACAAAATCTCTAAC 248861 29 100.0 37 ............................. CATTAAAAAAAGCCTTGTCCAACTGTTCGGAACAAAG 248795 29 100.0 37 ............................. AACAACGTCATATATATCATCTTTAGTTGTAAGAGCA 248729 29 100.0 37 ............................. CCTCATAACAACAGAATAAACATAATATATAAGCATT 248663 29 100.0 37 ............................. AAATAATATGTCTTATTATCGATACCATTGCTAAACA 248597 29 100.0 37 ............................. ATTACAACTTAGCTAATACAGGGAAGAAACTTGCTAA 248531 29 100.0 37 ............................. ACACTTGAAAATTTATTTTGCAATTCCTTTGAAAAAT 248465 29 100.0 37 ............................. AACTTTGTAACAGGTTTCCTGTTAAAACAGATACAGT 248399 29 100.0 37 ............................. AACATTTTGTTTACATCTAATCGAAAAAACTGTTCTT 248333 29 100.0 36 ............................. ATATCCATCTTTCCCTACCAGTGCTGTAAATTCTAG 248268 29 100.0 37 ............................. TCTAAATTACGAAAACTAAAAAACATATCAAGTTCAC 248202 29 100.0 37 ............................. TATCCTTGTATTTGCCTAACGCGATATAGAGCAAAAA 248136 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 248070 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 248005 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 247941 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ======================================= ================== 42 29 98.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGATATAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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 [18-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //