Array 1 12208-13088 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000001.1 Clostridioides difficile strain CDI-02 20161080_1_length_103117, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 12208 29 100.0 37 ............................. GAGGTGCAGGAGGTAAAAGTACCAGTACCCCCAAAAC 12274 29 100.0 37 ............................. AACTATAAAACAGGTGACGAAGCTTTAAAGTTTTATC 12340 29 100.0 37 ............................. AGATTGGTTTCTGTAGAAGTTCCTGGAGAGTCTGAAG 12406 29 100.0 36 ............................. TTAACTTTCTTATTAAGTTGAAAATACTGAGTTAAA 12471 29 100.0 36 ............................. TAAGTTCAAATAGATTCATTTAATTATGAACTTCAC 12536 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 12602 29 100.0 36 ............................. GTGTTAAATTGGTATTTTCTCTTGCTTTTTGATAAA 12667 29 100.0 38 ............................. GTACTATTTCCAACTTTTTTTTCGAGTTCTGAATACTC 12734 29 100.0 37 ............................. TGTAAAATGTGACAATTTCAGTCTCTTTACTCTGCAA 12800 29 100.0 37 ............................. AAAGTTTTGAAAGGCGAAAATCTTATTTTTTCAGATA 12866 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 12932 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 12996 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 13060 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATAGGATTACA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-19] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-81.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 19332-19820 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000042.1 Clostridioides difficile strain CDI-02 20161080_42_length_29906, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 19332 29 100.0 37 ............................. TGATATAGCTGCTAAAGATTCAAATTCAACTTTTATA 19398 29 100.0 36 ............................. GTAAAAGTATATGACTCATAATTAGTATCATATGAA 19463 29 100.0 36 ............................. TGCCTTGATGTCTGAATGCCCTCTAAATCTGTTCTG 19528 29 100.0 37 ............................. TTTACAAGATTTCTACCAATTAAATCACGCATAATTA 19594 29 100.0 38 ............................. TAAACTGTTGGTTCTACTGGTGTTTCTTCTTTATTTAA 19661 29 100.0 36 ............................. TTAGACGATGAAAATTTAGGACGTAGTTACATAGAA 19726 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 19792 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 95.7 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [65.0-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 12435-12076 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000054.1 Clostridioides difficile strain CDI-02 20161080_54_length_24457, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 12434 29 100.0 37 ............................. TTGGCATATCTCCACTTACATCCATTGCCCTATATCC 12368 29 100.0 38 ............................. AATAGGTGCTTTTGAAGTAACATCAAAAAAATCAAAAA 12301 29 100.0 37 ............................. CGGTGTATAATCTATCGCATTTACTACAGCTTTATTT 12235 29 100.0 37 ............................. AGTGTTTAGTCGGCTACCCCTGTACTCTGTCGAGCCA 12169 29 100.0 36 ............................. GATAGCAAAGCTTGCAAAGTAGATATTTGTGTTTTT 12104 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ====================================== ================== 6 29 99.4 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:72.41%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 14035-12630 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000082.1 Clostridioides difficile strain CDI-02 20161080_82_length_15581, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 14034 29 100.0 36 ............................. TACTTAAATCATGTTTTCATACTCCGCCATTTTTTC 13969 29 100.0 38 ............................. ACGTTAGATGTTGTAACCTGTTTAGGTTTAATTAGTAC 13902 29 100.0 36 ............................. TTTAAACGAAACACTTGAAATAGTTGACGTAGTAGC 13837 29 100.0 36 ............................. TTAATTTTTTTATTAAGTTGAAAATACTGAGTTAAA 13772 29 100.0 36 ............................. GATTTTTCTGCTTCGACTGGTGTTATTGAGACTTTT 13707 29 100.0 37 ............................. ATACACTTGAATAGTTCTGAAGAACTCAAAAACTATG 13641 29 100.0 37 ............................. TTTAACAATGCCTTTTCAATTTCGTTTATTTTTTCAA 13575 29 100.0 37 ............................. AATTAACGCATCTGCTATTGCTCCTTTTTCTATCCAC 13509 29 100.0 37 ............................. CTTTCTATATGTTCATTTTACTACATAATTAAATCGT 13443 29 100.0 36 ............................. AAAAATCACCCCTTTAAAAAAATTCGCGAGTACACT 13378 29 100.0 36 ............................. AAAGTATAAACAAGCAGTTCTTTCTTTAAATAATGA 13313 29 100.0 37 ............................. TGTTGAAAATAAAGACTTTACAGTAGTTACAACACTA 13247 29 100.0 30 ............................. CTTTCATTATTTTTTCTTCTAACTCTTTCA 13188 29 100.0 37 ............................. AATCGTGTTTACACACTTGAATATAGAAGTAAATTTT 13122 29 100.0 37 ............................. CGTGATTATAAAATTGAAAACGGAAAATTTGTATTAA 13056 29 100.0 37 ............................. TACTTAAAAAATTTTTTCGTCTGCATGTAAAAATAGA 12990 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 12925 29 100.0 38 ............................. TGGTTAAATCTCCAACAGAACATTTATCTAAATTACAA 12858 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 12790 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 12724 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 12658 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 22 29 99.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTATTCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACCACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [3-0] 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 1 7232-6412 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000086.1 Clostridioides difficile strain CDI-02 20161080_86_length_15062, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 7231 29 100.0 38 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGAC 7164 29 100.0 37 ............................. TGCGGTAATACCTATCTAATGTTTCTAGCTGTGTACT 7098 29 100.0 36 ............................. AAAATCAAAGGCAACATCATAGTCACGTATATTATC 7033 29 100.0 37 ............................. TAATAGAAACTGTTAATTTTATAAAAGGGTAAAAATG 6967 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 6900 29 100.0 37 ............................. ATGTTTGGGCTAATAGATGGTGATGCTGTCAATTATG 6834 29 100.0 35 ............................. TAGAAGATGATTTAAACTTTTCGGGTAAATCGCCA 6770 29 100.0 37 ............................. TCATTTGAGTTCTAAGTTCATCATTGTATGGTAGTTC 6704 29 100.0 38 ............................. TTTCGACCCGGTATATTTATTTTTTCAATCAAACGTTG 6637 29 100.0 37 ............................. TACTTTTTGAGTTCATAATTTGCATACTTAACCTCTA 6571 29 96.6 37 ..........G.................. TCAGGGTATGACTATTTATCTACTAGAGAAATTGACA 6505 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 6440 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.7 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TTTAGAAACATACAAAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCTATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATCTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 10009-9782 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000095.1 Clostridioides difficile strain CDI-02 20161080_95_length_13462, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 10008 29 100.0 37 ............................. TGTTTTAAATTATTTGAAGAATCTGCACTATACTTGC 9942 29 100.0 37 ............................. AAAATCTATTATTATCTGATTTAATTCATAATCAATT 9876 29 100.0 37 ............................. GGGTGGGAGATATGGCAACTATCCACACATGAAATTG 9810 29 79.3 0 ................G....GAAA..C. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 94.8 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAACGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCAAACACGACTAAGAGTGACTTTGATTTTAAACTTACAATCAAGTTTAAAAGAAATAAACATTAATTTTTAGAACTTCACTCTAGTTTCAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTAATAAAATATGGCTTAACAATTGGAATACAAGGCATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGATTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : AAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTTGGTTGAGTAAAATAATTAGAAAAAAAGATATAGCTGAGGTAGTGTTTTACGACGCTAGCTTCAATAAAATTTTATTTGAAAAATATTCCAAAATAGCTTGACTGTAACTCGTTACAATGTTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGAGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAAGAGAAGAATCTAACTAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAATTAAGGGTCACTCCCACCGACCAAAGTTTGAGCAACCCTTATTGACGTATACTATACATCAACTAACTATAGTATACGTCATTCCTTAAAAAATTTCA # Questionable array : NO Score: 5.60 # Score Detail : 1:0, 2:3, 3:0, 4:0.74, 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 : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 34133-33442 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000013.1 Clostridioides difficile strain CDI-02 20161080_13_length_52727, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 34132 29 100.0 37 ............................. TCGCCGCTTAGCGATGTTATTTTAGAATCTTTACTCA 34066 29 100.0 37 ............................. CATGATAGATTAAAGAAAGCTTTAGAACAAGTTAAAG 34000 29 100.0 36 ............................. GGGAGCTTTGTTTTTGTACATAGCCATCCACAAGTC 33935 29 100.0 38 ............................. TGTAAATGATGATGTTAAAAATATAATAGTTGATGAAG 33868 29 100.0 37 ............................. AGGGGCTTATATATGAATACTTTGCTAATAATAAAGA 33802 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 33736 29 100.0 37 ............................. CTATAACTTTTTCGCCAAAAACGTCTTTTATATCATT 33670 29 100.0 37 ............................. TCCAAAAGAACCTCTTTTTCTGTTTCATCAACTGTGT 33604 29 100.0 38 ............................. TATGTAAAAAATAAAATAAATAAAAGTAACACTTTATA 33537 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 33470 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 98.4 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAAAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCCAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGAAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTTATGATGGGAATGG # 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 [5-0] 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 1 1970-1552 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000172.1 Clostridioides difficile strain CDI-02 20161080_172_length_6679, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1969 29 100.0 37 ............................. GTATCAGTTTCATAAACTGTAACTAAATCATCTGCTA 1903 29 100.0 36 ............................. GGTAATTAAATTTTTCCCTTCTAGACTTGCATACAC 1838 29 100.0 36 ............................. CACATCTGCTTTGGGAATATTTTCTGCTCTAATTTC 1773 29 100.0 36 ............................. CTTATCGCAAAAGGGGCAAAACCATTATTTAAATCT 1708 29 100.0 34 ............................. TAAAATAATGACGCTAATAACATCATATATTTTA 1645 29 96.6 36 ...............A............. AGTAGACAATATCATTTTTGCAATTATAAAGATTTT 1580 29 93.1 0 G..............A............. | ========== ====== ====== ====== ============================= ===================================== ================== 7 29 98.5 36 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TAGAGTGGAGTTCATGTACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTTCATGGATAACTTTTTGTTTAATGTTTTAGCTAGTTTAACAGCTAGTGTGGTAGTTTACTTAATCAGTAAACTATTCAAAAAAGCAAAAAGCCACTCTCGCACAAAGAGTGACTTACGAGTTGAATTTAAATTTATATTTAAATCCAAAAAATAAACTCTGTTTATGATGAACTCCACTCTAACGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTAGTACAGATATTCAAAAATAATATTTTTTTTGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATATGTGTAGATATTGAAAATACTTAGTTTATTTTGGG # Right flank : AATGATATATCAGGAGTAGTATATATTGTAATGGATTCAGAAGGAGCGTGGGAATTTAAGATTGCAAAGGAAATGGAAGAGTCTGAATATCAGATAGACTTAAATAAAATCTTATAAAATAAATAAAATAGAGTGGTCCATGACTACTCTATTTTATTTTTAGTGTTTATATATTATTTATCTCTTTTTTTCAACTCTTCATCTATAAAATGACAAGCTAATAATAGCGGACTGATTTCTAAGCCAATTGACAAATCAACTATAGTTGGTATTGTAATATTTTTGTATTTGTTTCTTTCTAAATCAGATATATACTCTCGACTATAGTTAGTTCTATTTGCTAATTCTTTTTGTGTTAAACCTCTTAAAATCCTTAAATCTTTTAACATGCCTGTTTCCTCCTAAAGTATTATAGATAATCTATTTTTTACATATAGAAAAAAACAATGCGGTTAATAGCAACATTTTTTTTGTGGAAATTTGTGGTAGAATGTAGTTAA # 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 : ATTTTATATTAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-71.7]%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], // Array 1 21874-20731 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKRD010000017.1 Clostridioides difficile strain CDI-02 20161080_17_length_47185, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 21873 29 100.0 37 ............................. ATCAGCACGTGGTGGGTACTGTTCGTAATATTAGTTA 21807 29 100.0 37 ............................. GTAGGAAAAAGTAGTTTTCCTGTATCGTCTTTATATG 21741 29 100.0 36 ............................. TAGATTATTTTACTACTAAACTTAACGAGTACAATG 21676 29 100.0 37 ............................. CATCAAATAAAACTTTGCTTAATAATCGTGCTTTTGG 21610 29 100.0 38 ............................. CACACTAAATACTGCTATGGTGATAAACACTCTGACCA 21543 29 100.0 36 ............................. GAAAGAAAAACCAAGAATAAGAGCCCAGATAAAAGC 21478 29 100.0 37 ............................. ATTTCTGGGACTGTTACAGTTCCTAAAGTTGAAAATC 21412 29 100.0 37 ............................. ATGTTGATCAAAAAATTCAAGCCAAGAAAGTCTATCT 21346 29 100.0 39 ............................. TCAGCCGCCTCACTTGCTGAAAATGAAGTTCTAGCTCCA 21278 29 100.0 38 ............................. CTAAAAAATCAACATAATTTTAGTGGAGTTTTTTAAAA 21211 29 100.0 36 ............................. CGTACCAAACGAGAAAATGACTTCATACTCAACCCT 21146 29 100.0 37 ............................. TGACCTAACCTAACAATGTATTGATTTCCTCCACCTA 21080 29 100.0 36 ............................. AATTTATATTTAAAATTATACACTAGACTTCTAAAA 21015 29 100.0 37 ............................. GAGGTAAAAACTGTTCATGGAAGTGACATGGATACAG 20949 29 100.0 36 ............................. TACTCTCCTTATTCGTCATCAATTCTATCTTGAATA 20884 29 96.6 37 ............................A TGATAATAAGACTGAAAATAGTGCGAGTATTTCATTA 20818 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC Deletion [20761] 20760 29 69.0 0 AC........T.A....CAT.T.C..... | A [20745] ========== ====== ====== ====== ============================= ======================================= ================== 18 29 97.7 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : TGATTTTGTTTTTATATAAGAGAATTTGAATAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATAT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [85.0-75.0]%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], //