Array 1 49572-51064 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJI01000025.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain BCW_2030 NODE_25_length_68051_cov_0.123205, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 49572 29 100.0 32 ............................. CCTTGTGTTGCTCTTTGAATTGCTGCGCCATA 49633 29 100.0 32 ............................. AGGCGCGGGAGGCGGCAGCGGCGGCGCAGTCC 49694 29 100.0 32 ............................. CAGATGATCATCAAAAATATCTGAACGTCTCA 49755 29 100.0 32 ............................. TGCACATTCCTTCGTCCAGATAACCAGCAGCG 49816 29 100.0 32 ............................. ATACAAAACCGTTCAGTGGGGAAAGATCTAGT 49877 29 100.0 32 ............................. CCGCCCGCGTTGCGCAGTATCGGGATTGATAT 49938 29 100.0 32 ............................. GCGTTTAACGTACTTTTCCACGCCGTCCGCTA 49999 29 100.0 32 ............................. GGGCAATTCGCGGCGGGCGATGTCGCGCAGCG 50060 29 100.0 32 ............................. TAAGCAAGGAGTGGAGAAATGATTGATTTTAG 50121 29 100.0 32 ............................. ACGGGTATTCCAGATTAATTCCGGTCGGTGTT 50182 29 100.0 32 ............................. CCAACGGACAACCAGTGTGCTGGAGTGAGGCG 50243 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 50304 29 100.0 32 ............................. TACGGGCGCAAAATCACTGAACATCTGCGCAG 50365 29 100.0 32 ............................. CTTCAGCCTGCCATTTTCTCGGACCTGTAGCG 50426 29 100.0 32 ............................. TCGGTCAGCTCGCCTTTTCGGGTCCAGGTATC 50487 29 100.0 32 ............................. CGCTGGCGCGCCACTGCATCAGTACACGCAGT 50548 29 100.0 33 ............................. GCGGCGGCATTGTTCCCGCAGATGGATACCGAC 50610 29 100.0 32 ............................. CCGGTAAATCCGGCTTTTTTTACGCCATCTGC 50671 29 100.0 32 ............................. TGGACGCCACCACGCTGTCAGAATACCAGTCA 50732 29 100.0 32 ............................. GAGGGGGGCGATCCGGGGTCGGGTAAAATCTG 50793 29 96.6 32 .........A................... GGTTCGGGCTGGTTTACGGTGAGCTCAATTTC 50854 29 100.0 32 ............................. CCAGCTCATCGATAAAGCGACCAACCCGCCGT 50915 29 100.0 32 ............................. TCCTCGCTTCGCTGCGGGGCCTCCGGCGCGTT 50976 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 51037 28 93.1 0 ............T..........-..... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTAATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCTGATTGG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 67747-68019 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJI01000025.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain BCW_2030 NODE_25_length_68051_cov_0.123205, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 67747 29 100.0 32 ............................. GCTGGTGGGTCACTATCGGCAAAATTGAACAC 67808 29 100.0 32 ............................. GACGAATGATAGTGACATTTATTTTGACGGTC 67869 29 100.0 32 ............................. GCACGCGTGCAGGATGCTCCAGACGGCCCCGA 67930 29 100.0 32 ............................. CGTCAGCGGTTGACATGGCTAGCAGCTTACGC 67991 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTGATCCGGGCATTTGAATATTGGGCTAAAGA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-31.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 2-1861 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJI01000035.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain BCW_2030 NODE_35_length_55171_cov_0.126761, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2 29 100.0 32 ............................. AAAATGAAAAGCTGGCTAGCGCCGGTGAAATA 63 29 100.0 32 ............................. CACCCTGTAAAAATAAATTACTGCCCGTTTTG 124 29 100.0 32 ............................. GGAATTTTAAACAGAAAAAGGTAAATGTATGA 185 29 100.0 32 ............................. GCGAATGGACAGTGCAATTCGGCGATGAAATT 246 29 100.0 32 ............................. CCCCGGCGGGTGCCAGGGCTTGGGAGGTTAGC 307 29 100.0 32 ............................. GCATTAATCAGCTCAATACGGACGTAGTTCAG 368 29 100.0 32 ............................. CGGCATAATTTCAGGAATAAAAAATATGGCTG 429 29 100.0 32 ............................. GCAGGGATTACCCGCCAGGGCCTGGAGCATGG 490 29 100.0 32 ............................. ATCGCTATATTTAGCCCGCAGCTCACTAATAA 551 29 100.0 32 ............................. GTTTTACAACTCAACAGACCATGAAACTGTTC 612 29 100.0 32 ............................. TCGCCGTGAGGCATCCAGATTTAAGCAACTGC 673 29 100.0 32 ............................. CGCATTCATTTTCAGTCTTTATCAATCGCGGG 734 29 100.0 32 ............................. GCTAGCAATGATGCGGATTTGATGGGCGCAGG 795 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 856 29 100.0 32 ............................. CCTCATAATTAGTTAAGTGGTGGCGGTATTGC 917 29 100.0 32 ............................. CCGGATCTGGAGATAACGGGGATGTTGACACA 978 29 100.0 32 ............................. AACTGGATTTGAATTATTTATTTCACTTTCAA 1039 29 100.0 32 ............................. CCATTAACGCCGGAAGAGTCTATAGAAAAATT 1100 29 100.0 32 ............................. GCAGGCCGAATAAACGGCTTAGCGGGAATACC 1161 29 100.0 32 ............................. CCGAACAGCAGGCGATGATTGAAGCGTACGCC 1222 29 100.0 32 ............................. TATGGGTATAATTCTCCATTTGTATGCTAATG 1283 29 100.0 32 ............................. GCGTTTTTATCGTGGACGGCGCCAGCAGCGGT 1344 29 100.0 32 ............................. TGGGGTCGGTGTCGGCTATTGTGGCCGATCCG 1405 29 100.0 32 ............................. ATTCCCCAGCCAGTACCCGTGTCAGTGGGCGC 1466 29 100.0 32 ............................. TAACTGGTGAGGGTGAATTTGTTTGCATCCGT 1527 29 100.0 32 ............................. TACGCCGGGATGATTTCAACTACGTTGGACTG 1588 29 100.0 32 ............................. CCCGCGTGACGGTCTGGGGTGATCATTGATAA 1649 29 100.0 32 ............................. GGCTTTTCCTGTCAGGAGTACACAGGGTGGGT 1710 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 1771 29 100.0 32 ............................. CACACCCTGGCTGGCCGGGTCGCTAAACTGTC 1832 29 100.0 0 ............................. | A [1859] ========== ====== ====== ====== ============================= ================================ ================== 31 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 : 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //