Array 1 152239-150829 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000008.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 152238 29 100.0 37 ............................. CATTGATTATCTCGCCTATTCCAACGACTTGGTCTTG 152172 29 100.0 37 ............................. GCAAATCCACTTACTTCAACAGAAACTTTAAATTTTC 152106 29 100.0 37 ............................. TTATATATCTTAGAAACTTTTTTTAATAAAGAGAAAG 152040 29 100.0 37 ............................. TAGACCAAGCATTTGCTGTTTGATTCGTTTCTGGGTC 151974 29 100.0 36 ............................. TTGAATACAGTCTCTGCAACTTGTTTAATATTGTTC 151909 29 100.0 36 ............................. ATGTAGCATCATCAGCAGGAACGGACAATAAATTTA 151844 29 100.0 36 ............................. CCTTTTGCACCTTACACTCTTATAAGACAAATAAGG 151779 29 100.0 37 ............................. CAGATTACTGAAGATATAAAAAATTCTAAAGATGGTG 151713 29 100.0 38 ............................. TCACTTATGCCTTTTGCTGCTCCTGTTATTCCGTCAAG 151646 29 100.0 38 ............................. AAAATCCAAGTCCATATGCGTTTTCCCTTCTTTCATTG 151579 29 100.0 36 ............................. TCTAAAAACTTAACTTCACATGGAAAATCAGATTCA 151514 29 100.0 36 ............................. CAGATAATAAAAGCTAGGGGTGGCAATACTTTGTGG 151449 29 100.0 36 ............................. CTGTAATCGGGTGAAGCATCAGCTTTAATTAATCTA 151384 29 100.0 37 ............................. AAGATTCTGTTTACATTGAATAGAAAAAACTGTTCGT 151318 29 100.0 36 ............................. AGTTGCATAGAAGAGTATCTATTGGATATCATAACC 151253 29 100.0 38 ............................. ATAGTTATCCACTCATCATTTTGCAATCTTCCTCTTAT 151186 29 100.0 37 ............................. GATTTAATGTATGAGGCATTTATAAAAAGTTCATTTC 151120 29 100.0 36 ............................. ACATGCGACACGTTTGGTAATGAACGCCAATTCATT 151055 29 100.0 37 ............................. ATATATGTATAAGCTACACCCACTTTTTCAGCTGATG 150989 29 96.6 37 ..........C.................. GCTGCTAACAGCGCAAAAGTACCTTGTAGAGTAAATA 150923 29 93.1 37 ..........C.G................ TTTAATATTTTTTGATAATACTCTTCAATGTATGTCA 150857 29 89.7 0 ..........C............GC.... | ========== ====== ====== ====== ============================= ====================================== ================== 22 29 99.1 37 GTTTAAATTAGACTAAGTTAGTTATAAAT # Left flank : GGGTCTGGAATAAATCTGCTAATAATGATATGTTAAATAATGATACAATTAGTGTTGTGCCTGAATGTCTTTTAGAAGAGTACAAGTTGTATATTGATAAAAAAATGTATTTAGAAGCGAGTTCATTATTTGTAAATGTATCTGTAAAAAGATACAATTATAATAAAAAGATGTTTTATGAATGTGGAGATATAGTCGTTACAAGTTATAGTTATAATGATAAACTAGGTCTAATATTTGATTGTTAAGAGAATTATAGTATAACTAATAAAAATATTTTATTGGGAATTTGTTATAATTTATATCGACTACAAGTTTTATATGTTACAGTAGAATAATTTTGCAGTGAGCGAAAAATATGTGTAAATGGCTGTGAGATAGTGATGGCAAGGTTTATAACTACGTTTTTGTTTTTAGCTAAAAACACTACTGGTGGCTCACTGCAAATTACCTATTATAATAGCACTACAAGTGTTGGAATCACTATAGTTTTATTTGGG # Right flank : AAATTAGATATATAAAATTATGTATAAGCTATATTGTTATGAGTACAAATAATATTTCTCTATTCATTAAAAAACTTAACTGAGAGTTTAATTTATATTATTGAATTAGAAAGAATTTTGGAAAGTAGAAAATTATACCCCAATGATACCCCAATTACAAAAATAAATAATGAAAAACATTGAAAAAAATTAGTCCAACATCATAACTAAATAGCTATATACCTACACTTACAAAAATCAACAAAACAATCAAATAACCACTTATAGACTCCCCTCGTATCCACCATTGAAATCCACGAATACCTATATCCAATTGGATATAGGTATTTTTATACATTTTTAATTTAAATATTATTGATAAATACATTTAAAAAGTGTTAACCTAAAGTGAATAATCTAAATAAAAATACAATACTAGGAGAGGTCATCATTACAATAGCAGCTTGTGATGATGAAAAAGAAATACAAATCGTAATAAAAAATCAAGTTGATAATATATT # 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 : GTTTAAATTAGACTAAGTTAGTTATAAAT # 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: NA # Secondary Structural analysis prediction: R [0.00,-1.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.78 Confidence: MEDIUM] # Array family : NA // Array 1 137820-138710 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000007.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 137820 29 100.0 37 ............................. TTACCAGCCAGAGAGAAATTTTTAGCTCGCTGGTACA 137886 29 100.0 37 ............................. TCAGCATATTCTTCTAGTTCTCCAGCGTCCAGTTTGG 137952 29 100.0 37 ............................. AAAGAGGTGATGTCTAGTTTTAGCTTTGAAACGTATG 138018 29 100.0 37 ............................. TATAATTTATTAGCTTGTTTCAATAATTCTAATTGAT 138084 29 100.0 36 ............................. TCACTAACAGGAACATCAAAAGGAGGTTTAAAATCT 138149 29 100.0 37 ............................. GAAGTTAGAAGAGGAACACACTTACTTTTAACTTTCA 138215 29 100.0 37 ............................. GAATAAAAATAAATCAAAGTTACTACCCCCCAATAAA 138281 29 100.0 37 ............................. ACACTTGAAAATTTATTTTGCAATTCCTTTAAAAAAT 138347 29 100.0 40 ............................. ACTTTAGTTGCAGCTGCAAATGCACCACCAACTCCAGCAG 138416 29 96.6 36 ............................A ATCGAATTGAAATATTTATTAGCAGGAGCAAGTTTT 138481 29 100.0 37 ............................. ATGGATGCAGTTTTAGGTGATGCTTATATGGTTCAAG 138547 29 100.0 37 ............................. GTAAAAATGGTTTCTTTTAAGGAATCTTTTATGAAAA 138613 29 100.0 40 ............................. CCATATTGGGATATAGTAAAATTTTCAGGAAATGTATATG 138682 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 14 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATTAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCGAAAGCAGCAAGCATGTCAGCGGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATCGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATATCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTCAAACTATTTTCAGATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # 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: 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 [68.3-75.0]%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 310637-310803 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000002.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 310637 33 100.0 34 ................................. TAAACAAATTACTTTTAGTGTTATGTATAAATAT 310704 33 97.0 34 .........A....................... CAGATAAATCACTTGTGATGTTATGTTTAAATGA 310771 33 93.9 0 ...G.........G................... | ========== ====== ====== ====== ================================= ================================== ================== 3 33 97.0 34 CTACAATTTGATTAGGATATTATCTTAATTTGT # Left flank : ATATATGATGACACTTAGAAGGGTTATACCAACTTATCAAGACGAAGGAATGTTATGGCATCAAGCATTTTTAGAGACAAAAGACCAGAATGTTCAAATTGAACCCCCAAAGTATTCTAAAGCAGTTTTTTATGATACTGGATATAAAGAAGATTATGTAGATGTTGAAGTACAAGTTGCTGTATCTGGAAAGTATAAAGATACTGAACATGTTAAATTTAAGACTGTTCCAAGTGTGACTGCTGCAACTGCAATTGTTAATGGAAATTTCAATCAAGTTGCAGACGCTTGTGAGGCTATTGGTAATTGGATATCAGATAATAACTATGATGTGGATGGTCCTATGTTTAATATTTATCATGTAAGCCCTGGCAACGATAGTAATCCTGATAATTGGGTAACAGAGGTATGCTTCCCAGTTAAAAAGAAGTAATTTTTATATTAATTGGATAATATTTTAATTTGTTAGACAAATTACTTTTAGTGTTATGTATAAATAC # Right flank : TCAGATAAATCAATTATAAGATTATATACTATCCTTATACTCTAGTTAAATATATTTTAATCACTAATATAAATTAGTTTTTTTAACAAAACAATAAAAGAGTAAAGTACAAATAATTCCTTTGTGCTCTACTCTTTTTAACTTTCTTTAGACAATAATACAATGATAAATGTAAAAAATTATATATTCCATTCTATAGAAATGTGCTCACCAATAACATGTATGTTGTTAATCAATATATTATATCAAATTATATCAAAATTACATAAACCTTATAGGACAATCATATCTTATTACAAGAAAAATGTCTTATCCATATTGAATAAGTCATTCAGTTCATATACAAAGTCAATTTCATTGAGAAACATTTAATATATGTTTATAAAAATTTCATACTATTCTTTCATATTTGCATGTGATATAATTTATTAACTCATAATTTTGTTAATCAGTTGTGATTGTAGATTATTTATATAATCTAATATTTTTAGAAGGTGGTG # Questionable array : NO Score: 2.52 # Score Detail : 1:0, 2:0, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : CTACAATTTGATTAGGATATTATCTTAATTTGT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:78.79%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0 Confidence: HIGH] # Array family : NA // Array 1 244855-245609 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000001.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 244855 29 100.0 37 ............................. TTTATCAAAAGTATCTGGTACACTATCTAACATTCTT 244921 29 100.0 38 ............................. TTAATTAACTTTTCATTATTTTTATTTATGTTGCCTTC 244988 29 100.0 37 ............................. TATAAATTTCATTATTTTTAATTCAGCTTGAGGTATC 245054 29 100.0 37 ............................. TCTTGCTTTTCTATAACTTCAACTTTCCCGTTAGAAG 245120 29 100.0 36 ............................. TCTATCTTTGAATAATAAGACTTAGATATGCCTATT 245185 29 100.0 37 ............................. TTTTTCAAATCTGATATATCGACCTTAAATTTCGTGG 245251 29 100.0 37 ............................. TCTTCAACAGTTGTGTTACCATCTCCTACACGCACAG 245317 29 100.0 37 ............................. TGCTACGTAACCAGTTTCACCGCTTTCAGTATATAAC 245383 29 100.0 37 ............................. TGTTGGTATAGTTTCAGAAAAGAAATTCGAAACACTT 245449 29 96.6 37 ..................T.......... TTGTACAATTAGATTAAACGCTTCTTTTCCGCTTATT 245515 29 100.0 37 ............................. TATAAGCTATCTCATTGAGTGAATCAGCTATAATCTG 245581 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 99.7 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGTTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCTATTTTATCTCTAAATATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:83.33%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 492701-494119 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000001.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 492701 29 100.0 38 ............................. ATTGCTATTATTAGCGTTGGTTCAAATGCTAAATTAGT 492768 29 100.0 37 ............................. CATTATTGTTGCTGAATAAATCCACTTTTCATTTTCA 492834 29 100.0 38 ............................. TCCTTTTCAAATTTTACAACATCAGAAGTTAAAATATC 492901 29 100.0 37 ............................. CTAACTCTTCATTTTATTAAATATAAAAATTAAACAA 492967 29 100.0 35 ............................. AATTTATCCTCTAAATTTAAAAAAGGACTATTAGG 493031 29 100.0 38 ............................. AAAGACAACGACTCATTCTTGGTATTTGACATAGAAAA 493098 29 100.0 37 ............................. AGAAATATCAGAATTTTGTGGGCTTGGTTGGGAGATA 493164 29 100.0 38 ............................. AAAAACAAAAAATCCAACTTTAGATTATTATTTTGATT 493231 29 100.0 36 ............................. ATACTCATTATTGTAAAACATATAATCACCTCCTAT 493296 29 100.0 39 ............................. GCCAAACAACTTACTTAAACGTTCTTGTTCTGCTTCTAT 493364 29 100.0 37 ............................. TATAAAATTCTTCTTCTGTAAAGCCTTCTTTGAGTCT 493430 29 100.0 37 ............................. CTCTTTTTGAACACAGATTGCTTTCTCTTGCTAAAAT 493496 29 100.0 37 ............................. CTGGGCGTTTCTGTTTTTTCAAGAGCAGTTGACTTAA 493562 29 100.0 37 ............................. CGACAAAATTAACTATAACCTCGTAATTATCTAAGTG 493628 29 100.0 38 ............................. ATAAGTTACAGCAGTAAAAAGACTGACAGGAACAAATC 493695 29 100.0 37 ............................. AACATTCTGCTTACATCTGATAGAAAAAACAGTTCTT 493761 29 100.0 38 ............................. CATTGAATCTGCTTATTAATACTATATTTACATACTAA 493828 29 100.0 37 ............................. TTGATAAATATACACCAGTAGAAGATTAGATTAATAG 493894 29 100.0 37 ............................. CGCTTATAATTTTTAATTGCATATTCAATAAAAAATT 493960 29 100.0 37 ............................. TATTCTTTTGCCAACTTTATTCCATTATTCAAATCTT 494026 29 96.6 36 ............................C TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 494091 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAATTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAATTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # 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 : 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 [0-5] 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 31092-31252 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000005.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 31092 29 100.0 37 ............................. TTACTAAACATCTTATAACTTCTCTGAGAGCCTCTAG 31158 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 31224 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGGAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCAATATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGA # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAAAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # 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:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 64720-67111 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000004.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 64720 29 100.0 36 ............................. TTATGAAAGTTAAACTTTAAATCTCTTTTTTCTTTT 64785 29 100.0 38 ............................. AGCATTGTAAGTGGCATAGTTACATACATTCCTAAACT 64852 29 100.0 37 ............................. CTAGCAGGATAAGCACCACCAAACCAACCACCGCCAC 64918 29 100.0 37 ............................. TAGATTTAGTCATATACTTAAAAACTTCATAATAAGA 64984 29 100.0 36 ............................. TTTTTCTATTCCACCAAAAAAACCACCAATGCCATT 65049 29 100.0 37 ............................. ATGATTTTAACTATTTCGGTGTCCTCTTTTAAAGACT 65115 29 100.0 36 ............................. TTTATCCTTCTAATTTTAAATTTTAGAATTTTAAAA 65180 29 100.0 36 ............................. ACGCTAACGCAAATAATTCTCCTAGCTGATGTATTA 65245 29 100.0 36 ............................. CGCCTTTTATGTGAATCAAGAATTTTTTGATTAAGT 65310 29 100.0 38 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAGG 65377 29 100.0 36 ............................. ATAATGTATTAGTGAGTAGAGTAAAAACAAATTTCA 65442 29 100.0 36 ............................. CGAAGAGTTTTTTAATACTTCTTTTTCTTTTTCCAT 65507 29 100.0 37 ............................. AATTTTCTATGTTGAGTATAAAAATTTATCCAACCTA 65573 29 100.0 37 ............................. TTTGCAGGGGGGAGGCAAAGTTTTGATTGGGGTGGTA 65639 29 100.0 37 ............................. TTTTTGTTATAGCCATGTGTAGCGTATGTACCCGAAC 65705 29 100.0 36 ............................. TCAATTATGTAATGAAATTGATGAAGATAAAATTGA 65770 29 100.0 37 ............................. TTTTTTAATAAGCTATGACCTACTGATAAACATATTT 65836 29 100.0 37 ............................. AATTTATTAGCTAAAATTCTTCTGTTATTAAAGCTAG 65902 29 100.0 37 ............................. CCTGTAGCACCTTTTATTATATTCTGCACTGAACCAC 65968 29 100.0 36 ............................. TTGTAAAATCAGCGTTATTTTTTTATGATGGATATA 66033 29 100.0 37 ............................. TAACCTCTTTTGTTAGTCCATGAACTTTTGCCTTTTC 66099 29 100.0 37 ............................. TGTAAAGAGAAAAAAACAAAACTTTAAAATTTTCATA 66165 29 100.0 37 ............................. AAAGTAAACCCATGCACAACATAATTTTTAAATAAAT 66231 29 100.0 37 ............................. ACATATACATGCAAGGTAGTTTCTTTTTTTAATGTAA 66297 29 100.0 38 ............................. AGATTTAAAAAAACAGGTACTAAACAACCTGCTCTCAC 66364 29 100.0 37 ............................. TTTAGATACGCAGAAGAAGAAATTATAAGTTTAAATG 66430 29 100.0 37 ............................. GTGGGATTTTAAAGTATGCAAATAAAGGTCTTTCAAT 66496 29 100.0 36 ............................. GGGAGCGCAAGCAGGGCTAAATCAAAATGACGACAT 66561 29 100.0 36 ............................. ACGAAAATTAGAACTACCATATTTACTGTAAACTAT 66626 29 100.0 37 ............................. TTGGTTGTCCGTTGCCTGTGCCATTTATAATAATATT 66692 29 100.0 38 ............................. GACATAAAAAACACCCATAATGGAAATCGCAATTGGAG 66759 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 66822 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 66888 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 66954 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATTAATGAGTATTTAGAAACTT 67019 29 79.3 35 ............TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 67083 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 37 29 98.4 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACACAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATATATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAACTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # 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 : 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 [0-17] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 54762-53142 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000003.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 54761 29 100.0 37 ............................. TCCTGCAAGTGCCAAGTATGTTAAACCATCTGCTGCG 54695 29 100.0 36 ............................. TTCATTCGAAGGTGATTTCTGAAAACTTTCGCCCTT 54630 29 100.0 36 ............................. CCAATTCTACATAATAAGTCTCCTGCTTTCCACTTG 54565 29 100.0 40 ............................. CCAGTTGTCATGACTACATTATCAAAATAATATTCAGAAG 54496 29 100.0 38 ............................. TAAAAACGATTAAACCAAAAAACATCAATCTGATTAAA 54429 29 100.0 38 ............................. ATGTATTAACCTGTATGACACATTTTTCCTCATCTTGA 54362 29 100.0 37 ............................. TTATTTAACAACATAATTTTACGTCCTGCATTACTAT 54296 29 100.0 38 ............................. AAAAGTCAAACAGAAAAAGAAAAGATAAATGAGATAGA 54229 29 100.0 38 ............................. AGACTAAATAAATCTGTTTTATAAAAAGCGTTTAATTG 54162 29 100.0 37 ............................. TTTGCTTTAGCTTCTGCGTTTCCTGTCGCTGACTCGA 54096 29 100.0 36 ............................. CAACTTTTAGTCTTTCATCAAGCGCTTTTATTTGTA 54031 29 100.0 37 ............................. ACATAACCAAAACTCTCAAAATCAATACCTTTAATTT 53965 29 100.0 37 ............................. TTATCCGCAGTTGCGGAAATAGGAAAAACAACAGAAA 53899 29 100.0 37 ............................. TAATTGCATCAAGACCAGGATGGGAGATATGGCGACG 53833 29 100.0 36 ............................. ACATATGTCGCTTCATCAGCAGGAACAGATAACAGG 53768 29 100.0 38 ............................. AGCTATAAAACTATATCAGCAAAATGTGGATGTAGTGA 53701 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 53636 29 100.0 38 ............................. TGGTTAAATCTCCAACAGAACATTTATCTAAATTACAA 53569 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 53501 29 96.6 37 ...............T............. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 53435 29 96.6 37 ...............T............. CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 53369 29 93.1 38 ...............T.C........... AGGGTTTCTGATAAAATCTTCAAACATGTAAAATATGT 53302 29 93.1 37 ...............T.A........... CTTATACTTAGTTAGAACTATATATCGACACAAATAT 53236 29 86.2 37 .C.............TA......A..... TGCAATTTTTATTCGTTGTCCAATCTCTTTGAAATTT 53170 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================== ================== 25 29 98.6 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAACTTTTTTATCCATATCGTTTAAAAGATGAGAATATCTATTTATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGATATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATACATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAAATTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 [8-0] 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 [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 193810-193452 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000003.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 193809 29 100.0 37 ............................. GAAATAGCGAGAATTATTGTGTCTATAGGAGCGGTAG 193743 29 100.0 36 ............................. TTGTAGCAGTTGATTTATTTGCATTAGCTTGTGTTG 193678 29 96.6 37 A............................ GATGATTCATCTAAAAAAGATGCAAAGACAGAGCAAA 193612 29 100.0 36 ............................. TTTATTTTACTTGTAATTCCTCCAAGTATACCACTT 193547 29 96.6 38 ...............A............. CAGATGAACGTAATAAGTTCGCTGAAATGGAAGCTAAA 193480 29 86.2 0 .....................C.AA...T | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 96.6 37 GTATTATATTAACTATGTGGTATGTAAAG # Left flank : GGAGGTACAAAGTCACTAGAAAACTTTCATCAAGAGTCCACAGATATTGAGGATTCTAAATCAAGTGATAATATACAACAAGATGCCTAGTGAGATATTAAGAATTAAAGATGAATATACTTCTTTTTGTTTCGATGAAGCTTGTATGTTTTTAGTAGATGCTATAAAAAATGATAAAAAGCTTAAATTTGAAAATAATGAAAAGAAAACTATAGATAAAAATGAGAGAAAAACTTTTGTCCAAATAGCATTAGAGAAAAAGAAAAAAGTTAATAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATACATTGGATGTAATCATTGAAATTACTACGATATAAGCATATTTTGTAATATATCAAAAACATTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGTAAGAACTGGAAATGCTTAATTTATTTTGGG # Right flank : TGAATAAACGCACAAAACACCTACTTAAACATATAGGTGTTTTTAGTGTAAATATTTTTAAATAATTGGATAAATTTTCTAAATCAATAGACTAAATTATTAATTTTAGATAGAATTATATTTGAATAAATAATTTAATAGGGGAGATTATATTATGAAATTAACAAAAAAAGTATTAGTTTTGAGCATAATAGCATGTTTTTCTGTAATGATGTTTATGACGGGATGTACTAGTTCACCAGAACCTAAAATGGAGGAAGTAGGTCAAGAAGTACCAAAGGAAGAAGAGGAAGAAGTATCAACAGAAGATAAGGTTGACCTAAATAAATTTAATCCAGATGAACTTCTAGATTATCAGATGAATGAATTTAAAAAGAGTTGGAAGACGCTACAGGGAATAGAGAAAAGTGCAAAAGAAGGAGAAATAACTAGTGATAACTTAAAAACGGGAGCTGATTTATATGAAGCTCGTTTTAGGGATTTATGTGAAGAAGGCGAGG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 : GTATTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 273849-273488 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000003.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 273848 29 100.0 37 ............................. CCTCATTTTTATGTTTTTTTCTGCACCCGCAACCATG 273782 29 100.0 37 ............................. TTTCTATAAGAATTAACAGACTCTATTTTTACCACAT 273716 29 100.0 38 ............................. ACGCTTCCTACTTTTGAAGTTCATAAAGATGATTTAAA 273649 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 273583 29 100.0 38 ............................. CCGTCTTTTGTTGCTTTACATAAATTTATATTACTTAT 273516 29 89.7 0 .................CA........G. | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 97.7 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAGAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATTTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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 [83.3-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 389013-387664 **** Predicted by CRISPRDetect 2.4 *** >NZ_FUNV01000003.1 Clostridioides difficile strain VRECD0040, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 389012 29 100.0 36 ............................. TTACTTGACAAACAGTTACTAAAAATAGAAAGGTGA 388947 29 100.0 37 ............................. AAGGACTCTCCATATAAATTAGCCATTAAAGAACTAT 388881 29 100.0 37 ............................. CTAAGTATATTAATTTCTCCTTGCGTTTCTATATCAC 388815 29 100.0 36 ............................. GTTAGTTTTATATATTGTCTCTGTACCCATAGGATT 388750 29 100.0 36 ............................. TACCAATACGTTACAGCAGTAAAGACAGAAATTGGA 388685 29 100.0 37 ............................. AGAAGGACGAGTTTTAGCATTCCAAGAACGCGGGTCA 388619 29 100.0 37 ............................. ATACACAATTCAGACAAATATAATAAATTAGTTGCTA 388553 29 100.0 37 ............................. ACTTTTTTTAAAAAGTAAGTGCTTTTTATTTAAATCT 388487 29 100.0 37 ............................. CTCTTATTCTTTCAAATTTTCTTTTACATCTTTCTGT 388421 29 100.0 37 ............................. CTACTTCCACCACTTTGAGAAGTTCCAACACTTCCAA 388355 29 100.0 37 ............................. TTTGGATACAAAATAAAAGACAAACATTTAGTGATTA 388289 29 100.0 37 ............................. GTGATTTTGCTTACACTTAATAGAAAAAACAGTTCGC 388223 29 100.0 39 ............................. CATATGGATTTGTAGTTATATTAGTTAAGTTAGATACTT 388155 29 100.0 38 ............................. TTTTACGAAATTGTTATCTAATGTAATGATTAATACTA 388088 29 100.0 38 ............................. TTTTTTCCGATACTCTATTAGAAATTTTTTTCAAACTT 388021 29 100.0 37 ............................. ATTCTTTTTGAGTGAAGTTTAATTCTTTTCTAAGTGT 387955 29 100.0 36 ............................. TATAAAATTATGGAAATGCAAACAGGATATAACAGG 387890 29 100.0 38 ............................. GATACTGAAATGGAAATGAATATAGAAAAATACTGGGC 387823 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 387758 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 387692 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 21 29 98.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //