Array 1 677-38 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCTU02000026.1 Salmonella enterica subsp. enterica serovar Haifa strain HIY0265 NODE_26_length_44071_cov_23.479565, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 676 29 100.0 32 ............................. TAAACACATTGACTTTATCGCGATAAGCTATA 615 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 554 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 493 29 100.0 32 ............................. GCCGAAGCCATCAAATCAAAAACAAAATTATC 432 29 100.0 32 ............................. GTTGTAGCGAATTGCCCGCTGTATCGTGTCGT 371 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 310 29 100.0 32 ............................. GCAATTAATAACAGAAAATAAATAGCGAGGAA 249 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 188 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 127 29 100.0 32 ............................. GCAATTAATAACAGAAAATAAATAGCGAGGAA 66 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 11 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATTAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GGCAGACGCTGCCGTCCCCCCGCTCGACGCTGAGTGTT # 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 [18.3-68.3]%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 1 208963-206874 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCTU02000007.1 Salmonella enterica subsp. enterica serovar Haifa strain HIY0265 NODE_7_length_226810_cov_23.502283, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 208962 29 100.0 33 ............................. TCCCCGAGCTTAGTTAGGTTTCGCTGAACGTGC 208900 29 100.0 33 ............................. GTGCGCGTGGAGCGCCTTAATTCAATTACTGAA 208838 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 208777 29 100.0 32 ............................. GCCAGGGGTTCAGGATTTCGGATATTGCTGAC 208716 29 100.0 32 ............................. CGACGCCTCTTTTTTCTGTACCTTTTGCCGGT 208655 29 100.0 32 ............................. GCGCGGGAACGTGGGATGATGCCAGGACCATC 208594 29 100.0 32 ............................. TGGTCGAGGAGGGGCGGGCGATCACTGAAAAA 208533 29 100.0 32 ............................. TGGCCACAGTCTGGTTGTGTTGTTGGACGACA 208472 29 100.0 32 ............................. GCCCCTTATTACTCCGAAAATCCCAAAGATCA 208411 29 100.0 32 ............................. AAAAATCGGCTAACGAGGAAACGGCCTATAAC 208350 29 100.0 32 ............................. AAACGGCGCTCGTTTCAGCGGCAACGGCTGTG 208289 29 100.0 33 ............................. ACCACCACGTAGCCGTAGGCTGTCGCCAGTTGC 208227 29 100.0 32 ............................. CCGTCGGTGTTGATTTTCAGCTCTTTAGCTTT 208166 29 100.0 33 ............................. CCGTATCTGCTCTATCAGCTCGGCTCGGCGCGC 208104 29 100.0 32 ............................. CGTCAGAAAAACGGTTTATGCCGCCAGCCTGA 208043 29 100.0 32 ............................. TGATATCCCTCTGGTGATAGGCGTTGAGGTAG 207982 29 100.0 32 ............................. GGGCGGCTGTCGTGGGTATTGAGAACACCGCT 207921 29 100.0 32 ............................. AATTATCTATTTTTCTGGCCCGTTTTCAATGC 207860 29 100.0 32 ............................. TCTGGTCATAACATCGCAGCAAAATCAAAAGA 207799 29 100.0 12 ............................. CATTAAAAAAAA Deletion [207759] 207758 29 62.1 32 CAT..G.TATA.GTG.............. TGGTTGTTAATGCTGGCGATATTTTTAGCACA 207697 29 100.0 32 ............................. CAAAAAATTACCCATTGCGAAATCATATTCCC 207636 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 207574 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 207513 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 207452 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 207391 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 207330 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 207269 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 207208 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 207147 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 207086 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 207025 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 206964 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 206903 29 96.6 0 ............T................ | A [206876] ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 226775-225222 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCTU02000007.1 Salmonella enterica subsp. enterica serovar Haifa strain HIY0265 NODE_7_length_226810_cov_23.502283, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 226774 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 226713 29 100.0 32 ............................. GTGGTCCTCAAGTGAGTCTTTGGAAAAACCCA 226652 29 100.0 32 ............................. GGATCGGCAAACTTGTTTTAACGCCGGACAAC 226591 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 226530 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 226469 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 226408 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 226347 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 226286 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 226225 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 226164 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 226103 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 226042 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 225981 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 225920 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 225859 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 225798 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 225737 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 225676 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 225615 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 225554 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 225493 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 225432 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 225371 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 225310 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 225249 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGGCAGACGCTGCCGTCCCCCCGCTCGACGCTG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-15.0]%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], //