Array 1 1049-32 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000090.1 Clostridioides difficile strain CDI-11 20170030_90_length_3661, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1048 29 100.0 36 ............................. CTTGTAGATAATGCAGAAGAAGAAGAAAAACAGATT 983 29 100.0 37 ............................. GATGCTACCTTATTTTTATCTAATCCCCAAATAAACT 917 29 100.0 37 ............................. TTATTTCTTAACCAGTCAAATAATCTATTTTGTCCTG 851 29 100.0 36 ............................. ATCATAGTTTATTAACACAGGAAACGAGGTTAGTTC 786 29 100.0 37 ............................. AACTCTTTTAAAAAAGAATATACGATTTTCAGAGAAG 720 29 100.0 37 ............................. TATTAATTGCTTATCTATTAATTCTTTTAATTTTTCA 654 29 100.0 36 ............................. TGAAGGGTTATAAAAAAAATAATAGCGAAAAGGGCG 589 29 100.0 37 ............................. CACGAAAAAATCAGAAGGGGAGGGGGGTTATTTAAAA 523 29 100.0 37 ............................. TTAAAACTTGAATTATTTCAAAAAGCTAAACATCAAG 457 29 100.0 37 ............................. TTTAATTGCCCTTCATAGAATATTATTTCACCTTCTT 391 29 100.0 37 ............................. TATGAGAAAGTTGAATTTAAAGGCGAAATGAACATGG 325 29 100.0 37 ............................. TCTTTATATTGATATCCAAGAATAAGCGCACGTTCTT 259 29 100.0 38 ............................. TTGCTTAGCGCAATAACTTTTGAAAATACTACAGGAGT 192 29 100.0 37 ............................. TAAGATGTCCAAATGCTAAGAGAGAATTCTTAGGATA 126 29 100.0 37 ............................. AGGTCTAAAATTTGTATTTAGACATACTAAGTTATTT 60 29 96.6 0 ............................G | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 99.8 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : ACTATTATTATATAACTAACATCTAAGTGACATTTAAGAAAAATATGAGATTACTGATATTTTACTGATATAAAACTGAATGTTATTTAAAGAGAGCCTTGATTATATTTTTAGAAGCTTTTTATGCATATTATCTAAAATATGAGAATATCTATTCATAGTTATTTTTATATCAGTATGACCTAATTTTTTAGAGAGAATTTTTATATTAAATCCAGTTAGAAGAAGACTTATTAGAATATCCAATGTAGTAAGCACTAGCAGATATTCTTAAATTGATAAATTACTCCATTTTAATTTTATAGGTTAAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGCGTTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAAAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : GTCACAAAAACAAGGAATACTTAAGTTAGCAT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [36.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.18 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 4632-2165 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000015.1 Clostridioides difficile strain CDI-11 20170030_15_length_74111, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 4631 30 100.0 36 .............................. ATGTTTAAGTCAGATGGCTCACCAAATCAAATGTTT 4565 30 100.0 36 .............................. TTTATTGTAGCTGTTATAACTTCTTTATTTGTATTA 4499 30 100.0 36 .............................. TGATTTATTAGAGGAAAATAGAGAATTAAATATTAA 4433 30 100.0 36 .............................. TATTGCTCTAAATTTAGTAGACCAAGTTCAATTTCT 4367 30 100.0 36 .............................. TTAAATGCTTTATAAAGTATTAATTCATTTTGTAAC 4301 30 100.0 36 .............................. TATTAATCCTTCTATTGGAAAATATCGTCTTCAAGA 4235 30 100.0 36 .............................. TATAGTTTTGTAGCTCTTTCAAGTTCATCTGCATTT 4169 30 100.0 36 .............................. ATATATCTAAATGGATTATTATATCTAACTCCATCT 4103 30 100.0 35 .............................. ATTTTATAATGGTAAAAAAGAGTTTTACATAGCTG 4038 30 100.0 36 .............................. TTTTGAAGTTTAGTTATATCTGGGTCACCAGTCTGT 3972 30 100.0 35 .............................. CAGCATCTAAACCTTCTCTTCTTGCTTCCTCTGAA 3907 30 100.0 36 .............................. TTAAAATTCAATTTAGTAAATGAAGTTAATTCTGGA 3841 30 100.0 36 .............................. TTTTCTTTTGCAGCACTTCCTAGAACATCTCCATCA 3775 30 100.0 34 .............................. TCAAATCTAACTGATGTTCTTTTATTATCAAAAG 3711 30 100.0 36 .............................. TCTTTAGCTTTTTCTATTTCAGCAATTATCTCTACT 3645 30 100.0 36 .............................. GGATTATCCAATCTTTAATCTTATTACCATACCATT 3579 30 100.0 36 .............................. TATCTCTTAAAGCACTATCTAATTCAACAATAGTTG 3513 30 100.0 36 .............................. TATTGAACTTAGCATCTAATTTAGTATTTTTAGTAG 3447 30 100.0 37 .............................. TAGAATAAAAATTACTTGCAGAATAAAAAATGTCTTC 3380 30 100.0 36 .............................. TAGAAAAAAGTGTACATTGACAACTGAATATCCCCT 3314 30 100.0 36 .............................. TCCATCTACTTTTTTACTTTTAGCTTTTTCTTTAGT 3248 30 100.0 36 .............................. AGTCTGAAGATGAGCGAATGTGCTATATCTGTAATA 3182 30 100.0 37 .............................. TTAAATATAATAAATCGTAATGTACAAAAATAACTTA 3115 30 100.0 36 .............................. TTTCTTGAGTTAATTGAACCCCCATTTTTAAGCTCC 3049 30 100.0 36 .............................. TTTTCTTCTAGCTCTTTTTTCTTAGCCATTTTACCA 2983 30 100.0 36 .............................. ATGTTTATACATGAGTTTAGTGATAGGTTCTTGGTC 2917 30 100.0 35 .............................. ATTTCTTTTTGTGAAGTGTTAAGAGATTGCTCTTC 2852 30 100.0 36 .............................. ACAGTAGCTATTCCAATTTCTTCTGCTTGTGGCATA 2786 30 100.0 36 .............................. TCAAAGATGCCCCTCTAGCTGGTTTTTGGGTATCTA 2720 30 100.0 36 .............................. TGTGTTGAGTCGTGATATTGACTTTTTCGGAAACGG 2654 30 100.0 35 .............................. TTGTAGTCCTTCCATTTCCATCACACAAAAAGCAT 2589 30 100.0 35 .............................. TCTATGTTATGTACATGATTACCTTGTTTGAGTAG 2524 30 100.0 36 .............................. TAAGAGTCTCTTTGTATATCAATTTCTCTAGTAGAT 2458 30 100.0 36 .............................. TAAATTATTAGTTTTAAAATTTAAAGGGGGAAAAAA 2392 30 100.0 36 .............................. GCTAACTTAATTACTTGTTCCACATTTGCTAATACC 2326 30 100.0 36 .............................. AAATATTCAATATAGTTTTTAAATACACTTTCCATT 2260 30 100.0 36 .............................. TCATTAGTACTTGTTATTCCAGTAAAAGCTACTTTG 2194 30 93.3 0 ...............A........C..... | ========== ====== ====== ====== ============================== ===================================== ================== 38 30 99.8 36 GTTAAACAGTAACATGAGATGTATTTAAAT # Left flank : CAGATTTAAAAGAGTATACAATCTTTTTAAATACTATAGTTAAAGATGAATCTGGAAATATGATTGTAGGAAGTGATGTATGGTATGAATATATATCACTACTAAAAAATGATAATGTTGAGTATTCTGAAAAGAGGGTGAAAATGTCTGAAATTATGGAAAAACTAGATTATTTTACGTATAAAGTTCAGAAATTTGATAATTCATTTAATGATTTAGTTGGAGATATTTTTTATATTGATGATGGAAGTAAGTATTTTACAGAGGGAAAGTTTGATAGAAGTAAATTTAATCAAAATGAATTTCTATAATGTATTTAGATTATATAGAGAATATTTATCCCAAGTTAATTAATTAGAATTAGTTTAAAGCTATTGAAATATAGATATTTTATATCTTATATATATTTTCTAGGATTAGCTGGGATAAAAAATCTGTATATTAGTGTTTTCAGTGTATTTAAGGGAATTATATTTTTAAGAAGTACTGATTTTAAAGTG # Right flank : TACTCTATCATAAAATTTTAATATATTAAACAAACTAATATGTGATATACTTATGTATAAATAACAAAATAAATAGGTGATGTTATGAAAATTACAGGAACTTTGATAAATTACTATTTCCATTGTAAAAGACAATGCTGGTTGCTTGGTAATAGAATAAATTTGGAAGAAAATAGTGAAGATGTAAAAATAGGTAGACTTCTTCATGAACTAAAAGAAGAAAAATCAAAATATAAAGAAATTGCAATTGAAAATATAAAAATAGACAAATTAACAAGAGAATATTTAGTAGAGGTTAAAAAGTCTGATGCTGATATAGAAGCTGTTAAGTGGCAAGTTCTTTTATATTTAAAAAAGTTAAAAGAAAAGGGAATTGTAAGAAAAGGGAAAATTGAATTTATAGAAAAAAATAAAACTAATAAAAAAATAGTCTTTGTAGATTTGAGTGAAGTATCTGAAGAACAGCTTATATCTATAGAAAGAGAAATTGTTAATTTAAT # 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 : GTTAAACAGTAACATGAGATGTATTTAAAT # 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:76.67%AT] # Reference repeat match prediction: NA # 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: NA [85.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 2633-32 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000023.1 Clostridioides difficile strain CDI-11 20170030_23_length_63799, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 2632 29 100.0 38 ............................. TAGACTGATATTCATCCATACTGATGATTCCTAAAGAA 2565 29 100.0 35 ............................. AGGGTTGAGTTCTGGCGTATTAAGAGGTGAGGAGC 2501 29 100.0 37 ............................. TGGAGAAGGTCTTGGATTAGCACCAATAGGTCATAGA 2435 29 100.0 36 ............................. AGTGAAAGCAAGGCTATTCCTAATTCTTGGAGTGGA 2370 29 100.0 38 ............................. AAATAAGTTTTGAAGCAGAATTTACACACAATAAACTA 2303 29 100.0 37 ............................. AAATAAAAGAATTAGGATTTACTCAACAATCAATTAA 2237 29 100.0 37 ............................. ACCAATTTTTGTATGCTATATCACAATCTTTACTCTC 2171 29 100.0 37 ............................. TCTTCCACTTTAGGTTTATATGCTGACCTATACTTTG 2105 29 100.0 37 ............................. CTGCATTATCTACAAGTGGGTGGTTTTTTAAATTAGT 2039 29 100.0 36 ............................. AAGAAAGACAAACATGTTCAAAGTCATGTTCAAACA 1974 29 100.0 37 ............................. CGGCAAATAAGAGCAGTATATTCATCAGATTTAAATA 1908 29 100.0 37 ............................. GAGGTTGATGCTTATAGATTAAGTAAATTAGCTACTG 1842 29 100.0 37 ............................. GTTAGTGTATGTCCTGGTACTAACGCTACCTTCATTA 1776 29 100.0 37 ............................. TCATTATAACCCCAACCAACTACAGTTGCAGGGATTT 1710 29 100.0 39 ............................. TATAGCTAAATCTATTGTGGATTTAATTATTTCTGCCTC 1642 29 100.0 37 ............................. AACTCTTTTGCTATTCGTTTCACTACATTATTATCAT 1576 29 100.0 37 ............................. AAAAGTAATGAGAGTTTAGAAGATAGAAGGTTTAGGA 1510 29 100.0 38 ............................. TTATTTTCTCTGATAATTCTACTAAGGTATTATTTAAA 1443 29 100.0 35 ............................. ATATGACAGCACAAGGAACACCTACAGCACAAGCA 1379 29 100.0 36 ............................. AAAAACTAAAACAGTCTATGGCTATATGAAAATCTC 1314 29 100.0 37 ............................. AAGAAAATAAGACGTTCAAATCAAAAAAGACGAAGTA 1248 29 100.0 37 ............................. TCTATTCCAACATAAAGATACAAAGTAGTTTCTTTTT 1182 29 100.0 38 ............................. AAACAAATCATCACACAAGCAATTATTATGCTTACTAA 1115 29 100.0 36 ............................. GTCGTAAAACTTAAAGATGAAACAAAAGGAATGATT 1050 29 100.0 37 ............................. AGATTCGACGGAGAACTTTTATCTAATAAAGAAAAAC 984 29 100.0 37 ............................. ATCACCTGGTGATATACCCCTCTATCATCTCCTGCTA 918 29 100.0 37 ............................. TGGTTTGTTGCAACATATGTGTTCCTTCAACATATCC 852 29 100.0 38 ............................. GAATCTGGAGCAGGTTTATAAGTTTCTGGATAGCTAGA 785 29 100.0 36 ............................. AAAAAATATAAAAGAGCTAAGCACATGAAGGATAAT 720 29 100.0 38 ............................. TATGTTAAATTTGTTGATGAATTATATCCCAATTTTTA 653 29 100.0 36 ............................. CACCTCTCACTACTATAGAATCTTTATCAACGCTAA 588 29 100.0 37 ............................. GGAAGTATAATTTTTACTTTATCTCCATACTCAAAAA 522 29 100.0 37 ............................. TGTATTGAGGGGTCGAAAATAAGTGTGTTCAAACTTA 456 29 100.0 37 ............................. TTTGTAAATGTAACAGTTTTATCTAACATTTTACCGC 390 29 100.0 36 ............................. GTATTTAGATATTGCAAGTAAATTACCTTCGGTATC 325 29 100.0 38 ............................. TTTCATCTAATACCTCCTTGTTTTATCAAGAGGGTTAA 258 29 100.0 36 ............................. ATTAATTCAGAACTTGCACAGTTGTATATAGAACTT 193 29 100.0 38 ............................. ATATTCATATACTACATATTCTTTTCCTTCATCATTAA 126 29 100.0 37 ............................. AGGTCTAAAATTTGTATTTAGACATACTAAGTTATTT 60 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 40 29 100.0 37 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : CTACAATTTATAGAGTGGAGTTCATACAAAAGATAATCCTCCCAACGTATAGAAGGGAGGTGAATATGTATGGATAATTTTTTACAAGGTATATTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAGAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATTTTTATGATATAATAAAGATATAGAAATTTTGCAGTGTTCGATTTTTTGAATAAAATAGGGCTTAAGCATTGAAATATAAGGCGTTGAAGATGTATGATAAGTGTTATCATTTGCACCACTGCTCGCTCACTGCAAATTTTAGAGTGTTGCATATGTGTAAGTGTTGGAAATGCTAAGTTTATTTTGGG # Right flank : GTCACAAAAACAAGGAATACTTAAGTTAGCAT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAG # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [36.7-66.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.77 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 37175-36548 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000001.1 Clostridioides difficile strain CDI-11 20170030_1_length_160983, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 37174 29 100.0 38 ............................. CTCAAAATTAAATAGTTGGCTATGGTTAAGGGATTGCC 37107 29 100.0 38 ............................. ATAATAGCAGATATGATGTTTAATAACGGAAGTATAAG 37040 29 100.0 38 ............................. CTGAATGAACCTAAGGTAGTTGAACAGATTGAAAAGAC 36973 29 100.0 38 ............................. TATGTCAGGACTTCTTAAACCATATTCAGCATACACTC 36906 29 100.0 37 ............................. AAATTTAATATTGCTGGAAAAGGAGAAATGGATATTG 36840 29 100.0 37 ............................. AATGCTGAACTTAAAGTAATGATGCTATTTTGGGACA 36774 29 96.6 37 ............T................ AAATTTGCAAGGCTAAATTGCCCCTTAATTAATGGTG 36708 29 100.0 37 ............................. AGTTTTTCTATATATTCAGATATTTCACTTTTATCTT 36642 29 100.0 37 ............................. GAAATATGTATAGAAGCATTGAAACAAGATAAATATT 36576 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 99.7 38 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : AGTTCATACAAACAAAGGATTATCCTCCCCATTTTAAGAAGGGAGGTGATTATGTATGGATAATTTTTTACTTAGTATATTAGCCAGTATTCTGGCTAGCTATATAGTTTACTTAATAAGTAAGTTATTTAGAAAACGTAAAAAACCACTCAAAGCTGGCACTAAGAGTGGTTGGGAACTTGATTTTAAAATAAAGTTCCATAAATTCAAATAACATCGTTTATGATGAACTCCACTCTACTGCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTGCAGATATTCAAAAATAATATATTTATAATATAATAAAATTATAGAAGTTTTGCAGTGAGCGAAATTTGTGATAAAATATGGCTTAACAATTGGAATATAATGCATTGAAGATGTGTGATAAGTATTATCAATTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGTATAGATGTAAGTATTGGAAATACTCAATTTGTTTTGGG # Right flank : TTTATATTCCTCACACATATAATACAATTAATTCAGTTTTAATTGTCATTATGCTCAATATTTAGTTTTTCTGTATCTTATAAACCAAGAATATAATTGATAGAGACACCAAAAATTTTAGCAAATATTATTAACTCATCATCTCTTATTGGTCTTTCATCAGACTCTATTATATTCATAACACTTGTATTTATATTTGTTTTTTCAAACAATTATTTTTGTGACCTATTCATATTTTCCCTAATATATTTAATCACTTGACTTATGTTCATACATGATCACCTCGAAAAATTTCTATTGTAGAGTTGTAAAAAATTTAGCTTTAAAATATAGAATATCAAGTGATTTTAAGTAAGAATTGTAACAATTAAATAAGTATAAGACAAGTTTATGAGTTCATATTTTATAACAAGGGGTGATGTTATGAAAATACTACAACAATTTAAACCATACAAATATGATAAAGAAAAAAATATAGAATATGATGAAAAAATTATAGC # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [78.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 4310-3336 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000046.1 Clostridioides difficile strain CDI-11 20170030_46_length_29981, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================= ================== 4309 29 100.0 37 ............................. TTAAGCTTAAAGATTATGGTTTTCAAGTTTTAGTTAA 4243 29 100.0 36 ............................. TTAAGAAATGCAGATAATAGGATACCTTTCAACTGG 4178 29 100.0 38 ............................. TGGAAACTAATATTTATATAAAACTTGTAAATATACAG 4111 29 100.0 35 ............................. CGAGAAATTGAGCTAATTTTACTATTATCAGCATT 4047 29 100.0 36 ............................. AAAGGTGTGAAAAGAGATGAGTTAAATCAAAGTGAA 3982 29 100.0 36 ............................. GAAACGAAGCTAGTTATTGTGATTATACAAGTTTCC 3917 29 100.0 36 ............................. TTAATAGCACATCTTCGCTTTCAAGTTTCTCTATCA 3852 29 100.0 37 ............................. TATATATTGGATGTCAATGTCAAGAATACAAAATTTA 3786 29 100.0 37 ............................. ATAGGAAAATAGAGATAGGTTCACAATCTAATGATAG 3720 29 100.0 38 ............................. ATTTTTTCTTTTAGTTTTTTAGGAACTGGTAATCCACA 3653 29 100.0 36 ............................. TTCTGAATCATATGAAAACAAAATCTTATTTGTATT 3588 29 96.6 35 ...........................G. GAAATTATTAATGTTATTTCTACTCTTGCAGTTGC 3524 29 93.1 46 .......................A....G CATAGTCTATTGAACATTTATTAAGAGATAACTTTCGTTTTATATA 3449 29 79.3 55 ...........G...TA.T.A..T..... GTTTCACTATTGGACAACGGAAGTTTTTTCAGTGAGTAAAGATTGAATCACTTTA 3365 29 72.4 0 TA.....C....T..T...A...A...T. | A [3343] ========== ====== ====== ====== ============================= ======================================================= ================== 15 29 96.1 38 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : GACAGTCAGTTTTTTGTTTATCTGAATAATATTTTACTTAAATTATTAGAGGTCTTTTTGTACATTTCTTCTAAAACATAAGAATATATATTCATAGTTAGTTTTAAATCTGTATGACAAAATCTTTCAGAAACTATTTTCATATTAGTTCCTACCAAATGTAACAAACTAGCACCTGTATATCTTAAATTATGTATTTTCATTTGTCATTAGGTATTTTTAATACATTATATAACTATGATTTTATTATTTGAAATCTAAGTTATAAATACTATTGATGATAGAGTAATTGTATACAAAAATATATAATATATTTATGATATAATAAAGATATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAAATATGTTTAAGCATTGAAATGTAAGGTATTGATAGTGATTGATAAACATTATCATTTGCACTACTGTTCGCTCACTGCAAATTTAAGAGAATTGCATATGTGTGAGTATTGGAAATTCTACGTTTATTTTAGG # Right flank : ATTATCTTATTTCTATTTGTAACTTTTTTAAGTATGTATTGTCCAGTTGTAATTTGTTTTTATTATTTTAAACTTTCAATTCCAAAATTATCTAATATAATTGAATTAACTTACTTTCTTTTTTTATTTTACCTCCTTGTTCTCTAATTAATTTATACATTTTATTTATATTTAAGAATACATACTCTAATTTGATTACATAAAATAAAATGTTTTTCTACTATAAATTAAACTCTTTAAAAAATATGACTCAACTACTTTAATTTTTATTCTAATGATACATTAATTCTAGACATAATAAAACTCTCCTAGCTAGATGATTTTACATGTTTTAACTATCTCCTAAAAAAGTATAGTTTGATAAAAAGAGCATTTTTATATAAGCACCATACTTTTATTGTGGAAGATAATTATTTTATGAGGTATTGAAAACTTACATAAAATCTGTGGATAAAAACTCATACTTTCATTTTACTGACATACATCTAAACATAATAATA # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:-0.04, 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: F [80.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 19705-21826 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000004.1 Clostridioides difficile strain CDI-11 20170030_4_length_148066, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 19705 29 100.0 39 ............................. CAATATATTCTAGCAGGAGCAGATTTAGGAGCTTTACAA 19773 29 100.0 35 ............................. ATTCTTTATACAGAGAAACACGATACTATTTACAG 19837 29 100.0 36 ............................. ATATCTTTGTACTCTTGATTTTCCAGCTTTGATATA 19902 29 100.0 36 ............................. AATTGCATAATATTAGAGAGTTTAATACCATCAAGT 19967 29 100.0 37 ............................. GATGGTAAAATGGGAGATACTTTCTTTGGATTAACAG 20033 29 100.0 34 ............................. TTGCTTATACTTACAACTTTTTCTGCTGTAGCAT 20096 29 100.0 36 ............................. AAAACTGTTTCTACTTTTTTAGTCCCAAGTAATTCC 20161 29 100.0 37 ............................. CGCATTTTTGCTTTTATATTGCTTCTTCTATCTTCTA 20227 29 100.0 38 ............................. TCTAAAATATCCTCACAACTCCTGTAATTGTATTTTCT 20294 29 100.0 37 ............................. TGGTTTACTAAGAAAATAACGGATTTTTAAGAGAAAA 20360 29 100.0 37 ............................. TTTGATGAAAAAGAAGAATATAAGAGGGATGTGGCAA 20426 29 100.0 36 ............................. TAACTCCAAACTCCGTAAGTCTTGCCATTTCTCCAA 20491 29 100.0 36 ............................. GAGTATCAAGAGACCAGGGAAAGGCAGGTAAAGCAG 20556 29 100.0 36 ............................. AATGGTAAAATGAAGGCATAATAAATTTCAATATAG 20621 29 100.0 39 ............................. AGAGACAGTTTAAAACTAAATCAGAAGAAAAGTCTTATA 20689 29 100.0 37 ............................. TTTAAAGCACCCTTAAAATCTGGTTGGGCATGTTCTC 20755 29 100.0 37 ............................. TTGGTAGACAACCTGGTACTTGGCTTAAGATTGATAA 20821 29 100.0 36 ............................. CATGTGATAGAGATAATATACAATATGATAGAGAAA 20886 29 100.0 35 ............................. GCATAAAATACCTTCAAAAATAGCTTCTACTGACA 20950 29 100.0 37 ............................. CGAAATAATGTTTTGTTTTCGATGGGTATATATACGG 21016 29 100.0 35 ............................. TAGCTTTTGCGACTGGAAGATACGCAGATAATTTA 21080 29 100.0 36 ............................. ATTGTAAGCTCTTTAATTTCTAAATTAGCTCCGATT 21145 29 100.0 36 ............................. TTAAGTAGAGCAATGTATCATGGTTATGTGAAAAGT 21210 29 100.0 36 ............................. CTAGTAAATTTTGCTAAAAGGCACTATTATTGTAGT 21275 29 100.0 36 ............................. CAGTTGACACAATGAGTAAAAGCGAAGCAGAGCAAG 21340 29 96.6 37 A............................ TTATGTTATAGGAGCAGGTTGCAAGAAGTATAAGCAA 21406 29 100.0 37 ............................. CATAGATTTTGGAGATTTAAGGGAAGGCAATATGTGT 21472 29 100.0 36 ............................. GGGTTTGCATCTTTATTAGATAATTTTATTAATAGA 21537 29 100.0 36 ............................. TAAATATAGAATAAAGCATTTTAGTTTACAATGCAA 21602 29 100.0 37 ............................. ACCTAAAAAATCAATGCAGCTTATCTTATATGCAATG 21668 29 100.0 36 ............................. ATTAAGGAATAGTAATTACAGTGGACTGGAGTTAGT 21733 29 100.0 36 ............................. ACGTTTCGCAAGGGATTTTTTAAAGCGAATGGATAA 21798 29 82.8 0 ................A.CA...C....T | ========== ====== ====== ====== ============================= ======================================= ================== 33 29 99.4 36 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAAGTCGTTAAATAGAATTAGAAAGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGATGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGAGAGGATTCAATCTATATTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGCTATGGTATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGACATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGTTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTATTTTCAATGTATTCAATTACACCTATTTTGGG # Right flank : TAAAATACACTTACCTATAAACATGATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAGGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAGAAAGCACAATCAAAGCACATGGCTTTATAAGTAAAGAATACTGGCAAAATAACCATAATGCTGTTAAAAATGAGTATATACCTATATCAGATACATTTGTATATGATATTGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGTTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTGAAAAATATAAAAGTCTAAGTTTAGCAGTATACAAAGATAATAAAAAAGCAGTTATTTTTTATAATAAAAAAGGTTTTAATGTAGTAAAAGGGCAATTAAATGAAGACTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGAGTGTA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] 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 2-427 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADKQU010000076.1 Clostridioides difficile strain CDI-11 20170030_76_length_9546, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 2 29 100.0 37 ............................. AGGTCTAAAATTTGTATTTAGACATACTAAGTTATTT 68 29 100.0 37 ............................. TCACAAAAACAAGGAATACTTAAGTTAGCATCAATGA 134 29 100.0 37 ............................. TAGAGTATTGTTCTACAATTATATTTCCAACTGAACT 200 29 100.0 37 ............................. TGAAGTTTTCTTTTAAATTATCATCCTGTATAGCCTT 266 29 100.0 37 ............................. ATACAGGAACAGGAGTCGGAACAGAAAAAAACGCCTC 332 29 96.6 37 A............................ GTTGTATTACCTCTGTAATTATTTTTTCCAAAATTAC 398 29 82.8 0 .C.............A......AT.T... | G [419] ========== ====== ====== ====== ============================= ===================================== ================== 7 29 97.1 37 GTTTTATATTAACTATGTGGTATGTAAAG # Left flank : AG # Right flank : GAAGTTACAATGAGTACAAGAATGTTTCTATTTATTGTAACTTTTTTTATTACAAACTTAAATTTATAGTATATTATAAAAATCATTATAAAAAGATGATTTAATAAAAAAATATAATTAAAAAAACGATTAATAATCTATAAAAATGGAAAAAACATCCAATATCCTACAAAAATAGATTTTTTTATTACAATTACAAGTTTTTATTGCATCTATTTAGCAAAAGTATTATTATGCAAGTAAGATAATTATCAAAGACAATTCTGAATAGTCTGATTTAAAAGATACAATTAAAGGATATAAATAGGAATAATTTATAAATATTACAGAAGATTTATAACTAAAATTACGAACGTAAGTTTGTTATATGGGGTAGTTGTGTGGATGAATCAAATAAATTAATATTAGAATTGAATAATATTTTCTGTGAATTAGAGAGTATTAATAAATATAAGTTTAATGAATATAAAGAAATTGTTAAAAACTTACACAACAAAAAA # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 : GTTTTATATTAACTATGTGGTATGTAAAG # 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 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-78.3]%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], //