Array 1 19-1330 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBQ01000017.1 Salmonella enterica subsp. enterica serovar Agbeni strain 04-0473 NODE_17_length_118169_cov_3.05449, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 19 29 100.0 32 ............................. GCGGAAGCGCCAGGATACCCTGAAACGCTACC 80 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAA 141 29 100.0 32 ............................. TAAATACTCAATCATTAACCGAAGTTACGTTT 202 29 100.0 33 ............................. TCGCAACCCGCCTTATTTAATTATTGAAGCGGC 264 29 100.0 32 ............................. GAATATAGTTTCATCGTTATTTGTGACGTCAT 325 29 100.0 32 ............................. GGTAAAGAGCCTAAATATTTTATATTAGATGA 386 29 100.0 32 ............................. CGTAAATACCACTACTGGTTGATTGCATTTGC 447 29 100.0 32 ............................. AATTATTAACATTATTTGTTGTCTGTTGTTTT 508 29 100.0 32 ............................. GCGGCACCTACGTCTGTAAAGAGCTGGTTTAT 569 29 100.0 32 ............................. AATGAACGGAAGATATGGAGCACAAAAATGAA 630 29 100.0 32 ............................. TCGGGCAAAAAAAGCGTGTTCACCGCTGCGCC 691 29 100.0 32 ............................. GTGCGTGTAGGGAATGATCAGCGTATCGGACA 752 29 100.0 32 ............................. CAACTTTGGATCGTTTATATTCATCGATATCC 813 29 100.0 32 ............................. CACCTGGTAAATATTTTTCTAATCAGTCGATA 874 29 100.0 32 ............................. TACCGAAAAATATTCAGTCCCCTGAAGCGCGT 935 29 100.0 32 ............................. CCAGCTGACAACCTGGCGTTTGTGGTTCGTTA 996 29 100.0 32 ............................. TTTTAGACATGGCAAACGCCGACAAGATGAGC 1057 29 100.0 32 ............................. TGCTGGACTGGTCAGAAATTGAGTTTGCAGCG 1118 29 100.0 32 ............................. ACGCCTTCGTAGCATACCAGCTTGCTTATAAA 1179 29 100.0 32 ............................. TTTTGGGCGGCCCTGGACACCCGACGCGGCTC 1240 29 100.0 32 ............................. TGCGGCCACGCCCGCGTAGCAGATAGCCGCCA 1301 29 100.0 0 ............................. | A [1328] ========== ====== ====== ====== ============================= ================================= ================== 22 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGTGATATAGACGAATTGG # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCGTCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [20.0-46.7]%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], // Array 1 1009-2 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBQ01000002.1 Salmonella enterica subsp. enterica serovar Agbeni strain 04-0473 NODE_2_length_234306_cov_3.13755, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1008 29 100.0 32 ............................. CGCCCAGGGGGAGCAAATAACGCTGGAATCAA 947 29 100.0 32 ............................. CACAAACATAGAGCAAATTAAAATAGCTTTTA 886 29 100.0 32 ............................. AATTTCGGGGGAGCGTGCATGTCATTTTCTCC 825 29 100.0 32 ............................. ATTTACTCCAACTTAACCAGGCCATTGTCAAA 764 29 100.0 32 ............................. TATCCCCGTAGCTATATCCCATTTTAACCACA 703 29 100.0 32 ............................. ATTATTATAATTGGATGTTACCATTATTTTGC 642 29 100.0 32 ............................. GAGTTAAATTAATGAGACTATCCGCTTTTAAT 581 29 100.0 32 ............................. TATCTGTATAAATTGTTACACCGTTTATAATT 520 29 100.0 32 ............................. AAATCCAGATAATTTTACACCCCCTGCACCTC 459 29 100.0 32 ............................. TTGATGTTGATATTATTTCATTTTCTGAAAAT 398 29 100.0 32 ............................. GTTCTCGGCCGTGTAACATCTACCGCCCAGAA 337 29 100.0 32 ............................. GGCTGGATTGTCAACGCCGCCAACATCAAAAA 276 29 100.0 32 ............................. CGTCGATGACCCTACCAAATGGCGTAAATGCT 215 29 100.0 32 ............................. CCGGATCCCCTATTCCGCGATGAGTACGCAAA 154 29 100.0 33 ............................. CGGGGTTGCACCGAGTTAGTAGCATACTTGCGG 92 29 100.0 32 ............................. GGGGAAAATTGCTGTGTGATATAGACGAATTG 31 28 79.3 0 ................A.A...-.G.G.A | CT [11] ========== ====== ====== ====== ============================= ================================= ================== 17 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCATTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : AC # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [48.3-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 19714-17556 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZBQ01000002.1 Salmonella enterica subsp. enterica serovar Agbeni strain 04-0473 NODE_2_length_234306_cov_3.13755, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 19713 29 100.0 32 ............................. CCGCATAACTTCCCCTTTACTTTGTCTGCATC 19652 29 100.0 32 ............................. ATTTATAAATTCAGTAGTAGAAAATAATTCAT 19591 29 100.0 32 ............................. GGCGCGCCTGCGCCCTCTGGGACTCGTGTCAA 19530 29 100.0 32 ............................. GTTCGGATATAGAATATAATTTAAAATCGATG 19469 29 100.0 32 ............................. CATTACAGTCAGCTACATTAAACAATGTTCGT 19408 29 100.0 32 ............................. GGTAATCATAATCAGATGCATCCACATATTTT 19347 29 100.0 32 ............................. AACGTCTTTATGCGGTTTTGTGTCGCCGGAAA 19286 29 100.0 32 ............................. GCTTTATCGTGCTGGTGGATGAAGAAAACAGT 19225 29 100.0 33 ............................. AATTCTCGTTTACACACACATCACCGGCTACGC 19163 29 100.0 32 ............................. TGTGATTTACCGCTTTCCTTATTAATCGTTCG 19102 29 96.6 32 ............................T GGCGTAATGTTTCCATTGCAGAAACTGCGGGC 19041 29 100.0 32 ............................. TTACGAATGAGAACCCATTTAGAGGTCGAATC 18980 29 100.0 26 ............................. CGTCACTACCGAGACCGAGACCGAGA 18925 29 100.0 32 ............................. GTCTGGGATAATTCAGCGGGTACGGCGATATA 18864 29 100.0 32 ............................. CAGCGAAACCGGAATTAAACCCCGCGAACCTC 18803 29 100.0 32 ............................. GGTTTGTTATGCCTCTGACACCGTTTCAGCGC 18742 29 100.0 32 ............................. TATATTGCGGCGCAACAACTGAAAAACAGGCG 18681 29 100.0 32 ............................. AAGCTGTTTCAGCCTCAATCAGTAGCGGCAAT 18620 29 100.0 32 ............................. TAAAATCTAAAAATAATACTGGACATTGGGAT 18559 29 100.0 32 ............................. CCAATAATATCCCTAGAGGTTAAATAATAATA 18498 29 100.0 32 ............................. GTATGCAGCCGGTTTCCGACAGTTCGCCAGCA 18437 29 100.0 32 ............................. AGAGCGTTTATATATCGTCATTCACCAAAATC 18376 29 96.6 32 A............................ GTTCAGGATTTTACATTAACGTTAAAATATTA 18315 29 100.0 32 ............................. AGTCAGTCAGGCTGACAAAGAAAACAATATTA 18254 29 96.6 32 ............................T TCCCCGCAAGTCGCACCAGTAACACTGGCAAC 18193 29 100.0 32 ............................. TTGCCTTTAAAGTGGGTGTGAGCATGAGACAG 18132 29 100.0 32 ............................. TTCCGCCATGACCGTTTCAGCCTCCAGCTTTC 18071 29 100.0 32 ............................. GTCCGTTCGTCGGCAGGCGTGGTCAGGTCAGG 18010 29 100.0 32 ............................. CGAGATGTCGCGGTCACTGGCTTTAATCCAGC 17949 29 100.0 32 ............................. ACCGTCAGAACCCTCACACCACGCTTCGTGCT 17888 29 100.0 32 ............................. CAGTGATGAATGCAGCCGGTAACACGGCTGTG 17827 29 100.0 32 ............................. GAATCCCGATTCTCGGTGTTGGCGCCATCTAT 17766 29 100.0 32 ............................. GTAAAAAGCCGGTTATGCGCAATAATCAATTC 17705 29 100.0 32 ............................. CTACTTGGCGTGATGCGCTGCCGAAAATTTTG 17644 29 100.0 32 ............................. CGCGTGAAAAATTGCGTTACCGCCTGGGTGAG 17583 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACCCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCACTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAAAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGTAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTTGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.00, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-71.7]%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], //