Array 1 3038-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCVS02000024.1 Salmonella enterica subsp. enterica serovar Senftenberg strain HIY0146 NODE_24_length_27338_cov_45.610709, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3037 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 2976 29 100.0 32 ............................. TGCCTAAAGATTTTGAGCGGACGGGAGCTGGC 2915 29 100.0 32 ............................. CACACTGAGGAAATGTGCTTCAGGCTGGCTTA 2854 29 100.0 32 ............................. CCCACTCGCGGAAACTGATGCTACAGGATATT 2793 29 100.0 32 ............................. CTGCTCGAAATTGTCGCCTATTGGGAAATTAT 2732 29 100.0 32 ............................. GCTAGGAATCCGCAGTGTCAGGATTTGGCTGA 2671 29 100.0 32 ............................. GAACAAAAAAACTAAACATTATTTTATGGTGA 2610 29 100.0 32 ............................. CGATATCAGACTTAGCCGTTCCCATTTCGATT 2549 29 100.0 32 ............................. TCAATGCCTGCAATTCTCGACATGCTGCATAA 2488 29 100.0 32 ............................. GTGATCGGCCTGTCCGGTACCCCTTTCAGTAA 2427 29 100.0 32 ............................. GAGATTCAGTCAGGTCGCCTTGACCCGCGCCA 2366 29 100.0 32 ............................. CTGGGGCGGCAACTCAAAGAGCTGGGGGAAAC 2305 29 100.0 32 ............................. AGTAACCATCCGCACTGATGGCATTAGCTACA 2244 29 100.0 32 ............................. CGAATTTTGCGCGTGATGGGCGCCCATGAGGT 2183 29 100.0 32 ............................. CGGACAGGTCGACAGCAAAAACTACCGGGCAA 2122 29 100.0 32 ............................. GCTGAATGGGTTTATTGCTTGGCAACGCTTTA 2061 29 100.0 32 ............................. TCAACGCCAGGATCGCAATTTTTACCGGATTG 2000 29 96.6 32 ...........................T. GCGCATGATCGTTGTGCGTGGGCGTAGTAAAT 1939 29 100.0 32 ............................. CATCGGGGAAGGGAGCACAGCTTTTTCTGCAA 1878 29 100.0 32 ............................. TGGACGCCGTCTATTCATATGCCGCGCTGGGC 1817 29 100.0 32 ............................. GCGGCAATCGCCGCCATTTGATTAGTAACCGC 1756 29 100.0 32 ............................. CAATGTGACACATTGCGAGAAGCGGGAATTTT 1695 29 100.0 32 ............................. TTCACGTCCGCCATCTGCGACACCTCCACCCA 1634 29 100.0 32 ............................. AGACCGAGACCGAGACCGGGCAGGGCGTAGCG 1573 29 100.0 32 ............................. CCCCGAGAGAAAATACCCGAAAGCGTTGTCGT 1512 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 1451 29 100.0 32 ............................. ATCAATATTAAACTCATGACCATGAGCTGTCG 1390 29 100.0 32 ............................. GGCTGCAGAGATTTGGCTCCCCCCTCCCCTGT 1329 29 100.0 32 ............................. TCAGGGGAGAGGATTTTATAGCTGTTGAAATG 1268 29 100.0 32 ............................. CGGCTGTAATAAAGCCGCCCCGAGTCGCACCA 1207 29 100.0 32 ............................. ATGCCCGAGGGGGTCACGCTAAAAACGCTGAG 1146 29 100.0 32 ............................. GGTCGCACCAGCGGCGCCCGCACTTTATCCGG 1085 29 100.0 32 ............................. AGCTATATGTCTGACCGTGACGGGTCGGTTCG 1024 29 100.0 32 ............................. AGTTTGGCCGTGAGACAACGATGTTCCCGGAC 963 29 96.6 32 ....C........................ TCAGCATCGTTGTCGATCTGGTCGGCAACCTC 902 29 100.0 32 ............................. ACCGCAGCGTTCGCCCGCAGGGTAAGGAGTCC 841 29 100.0 32 ............................. TTTACATTCCTGTCGTTGGGCATGAGGCCAGC 780 29 100.0 32 ............................. GAATTTAACCATCGTATTTGCAGTTATTGTTT 719 29 100.0 32 ............................. CTAATGCGAGGGATTCTTTACTAGCTGAAAAA 658 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 597 29 100.0 33 ............................. TACCGGGCGGCACCGGTGCAGGCGACAACCAAC 535 29 100.0 32 ............................. ATGGAAGCCGATCTCTCCAGGCCCGTAGCCCA 474 29 100.0 32 ............................. AGCGACTCAACATGCCGGTTATCGCTGAACAG 413 29 96.6 32 ........T.................... GAGTTATAGGCGACTTCGTTCGGTTCGAAAAC 352 29 100.0 32 ............................. CGTACCCCCGGCATTTTCTGGAACGTGGTCAT 291 29 100.0 32 ............................. CAAGGCGAGTTCAGGCGGTGGCTTGAATCTCA 230 29 86.2 10 .................C..C.....TG. CCGAGCGTGA GG,A [202,205] Deletion [192] 188 29 100.0 32 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACG 127 29 100.0 32 ............................. GGCAAAAACAGGCGTCTTTTAGGGGGTGGTCG 66 29 96.6 0 ............................C | ========== ====== ====== ====== ============================= ================================= ================== 50 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATATTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : CGGTTTTTCTCTTGTCTTACGTATAAATCCAGAGTGTT # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.03, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 22015-19911 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCVS02000024.1 Salmonella enterica subsp. enterica serovar Senftenberg strain HIY0146 NODE_24_length_27338_cov_45.610709, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 22014 29 100.0 32 ............................. GGCAGTGGCGGCGGCGTTTTTTTTGGGGTATG 21953 29 100.0 32 ............................. CATAACGGTTGTAGGTTCACAATAGCCCGTTG 21892 29 100.0 32 ............................. TATCACACTCTGTTACACCGTTATGCACAGAC 21831 29 100.0 32 ............................. AGTATCACCGGATTTTTCGTGCATATCGTGCA 21770 29 100.0 32 ............................. GAACCGAAATCATTTGTTGCTAATTTTAATTC 21709 29 100.0 32 ............................. TGGCAATTGAGCGATTGAACTCGACAGAACGT 21648 29 96.6 32 ............................T AATCCAGAATGCCGGGAGTTTTACGCATCCAC 21587 29 100.0 32 ............................. CGCGTGCCGTGATGCCGGCGTTAAAGCGGAGT 21526 29 100.0 33 ............................. CAAAATGTGTTGTTATGATGGTAGCCTTCAGAC 21464 29 100.0 32 ............................. GCCTGGTTCTCTGAATCTGCAACGATTATCTG 21403 29 100.0 32 ............................. GAACTACTCAAGGGAGAAACCTTTTATGCCGA 21342 29 100.0 32 ............................. TTATCCAGATCTTTTGGTGTAACCTTTTTGAT 21281 29 100.0 32 ............................. ATCTGAGGCGTAGGTGTTCCACACTGCTTCGC 21220 29 100.0 32 ............................. GCGCTACCCCAAACCCGCAAGGGGTACGGTAT 21159 29 100.0 32 ............................. TCGGCGATTACGCGGTCAACGAAGAGACGATG 21098 29 100.0 32 ............................. CATTGAGTTGGTATACGAAAGGTGCAGATATG 21037 29 100.0 32 ............................. ACAAACAGCCGTGGCGATGTTAGTCGCGAAAC 20976 29 100.0 32 ............................. AAATGGGGGAGGTGCTAGAACTGGATGGCGCA 20915 29 100.0 32 ............................. GATGAATGAAATATTAACTGACGCCCGCATCA 20854 29 100.0 32 ............................. GCCCTTCGATGTTGTAACCTGATGTTGTAATG 20793 29 100.0 32 ............................. CGCATAAAAAACAAAGTGTTATGGCTATACCG 20732 29 100.0 32 ............................. CATGGCGGCGCGGCAGGCGCTCCACAGCTCAT 20671 29 100.0 32 ............................. GTTATAAATTCGGTTAGTGACGTCGTCTTTTA 20610 29 96.6 32 ...........................T. GCATGTTCTGAAGTGAAGCAAATGTTATAAAA 20549 29 100.0 33 ............................. GGAACAGCGCCGCATTTAAAGAGTTCGCCTGGC 20487 29 100.0 32 ............................. ACTCACAAATCTGTTTAAATACCGTTTCCGGG 20426 29 100.0 32 ............................. GGAATTGGAATGCGCAGATCCGATTACCAACG 20365 29 100.0 32 ............................. CGTATCGAACCGAGTGAGCAGAATTTGAGGCC 20304 29 100.0 32 ............................. AGGTAGGGAACCGAACGCCATCACATGAAAGT 20243 29 100.0 32 ............................. CGCGGATCAGGCTAACTCAATCAAATCGCCAG 20182 29 100.0 32 ............................. GTTATGCGCCGAAAATTGAAAGCGAATGGCTC 20121 29 100.0 32 ............................. ACAATAAGTAAAGAGCAATGGAGCGGCATCCA 20060 29 100.0 32 ............................. GTCAACGAGGGATTGAATTGGTGGTGTATTGG 19999 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 19938 28 96.6 0 .........................-... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCTTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCTGATTGGC # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 164622-164226 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCVS02000009.1 Salmonella enterica subsp. enterica serovar Senftenberg strain HIY0146 NODE_9_length_164658_cov_45.725201, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 164621 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 164560 29 100.0 32 ............................. GGCAAAAACAGGCGTCTTTTAGGGGGTGGTCG 164499 29 96.6 32 ............................C GGTTTTTCTCTTGTCTTACGTATAAATCCAGA 164438 29 100.0 32 ............................. GCAAATATGTTGATCGGGATTCTGGCCGCACT 164377 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 164316 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 164255 29 96.6 0 ............T................ | A [164228] ========== ====== ====== ====== ============================= ================================ ================== 7 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AACCGGCAAATATGTTGATCGGGATTCTGGCCGCAC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-30.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //