Array 1 3069659-3066823 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN890522.1 Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712384 chromosome 1, complete sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3069658 29 100.0 32 ............................. CGGTACGAAAATTTTTCATTTTTTATCCTCTG 3069597 29 100.0 32 ............................. GAAGCGCCGCTGGGGCTGGTGGCGGCAGGGTT 3069536 29 100.0 32 ............................. TCGTTTTTCTTATCGGTGTGGTTCGGTCGTAA 3069475 29 100.0 32 ............................. CCCGCATTTCTCGGTGATCGACTTTGTAACCT 3069414 29 100.0 32 ............................. GCGCAGCCCTCAAACCCACAACATACGACGAT 3069353 29 100.0 32 ............................. CCAAAGAGCTGACATTGCTAGACCCTCATATT 3069292 29 100.0 32 ............................. AAGGGCGGATCACTCTACGTCAGCACGTCATT 3069231 29 100.0 32 ............................. GTAGGCGTGGAGCCTTGTCACTGGCCGTGAAC 3069170 29 100.0 32 ............................. GTGGCAACAACGTAGCTAAAGAGATCGGAGTC 3069109 29 100.0 32 ............................. GAGGGCGCGGAAATCGGCAATAAGGTCCGGGC 3069048 29 100.0 32 ............................. TGGGCCATTGGCGTCTCATCAGTATCAACACG 3068987 29 100.0 32 ............................. GCAACCATCGAACTACCCGCTTCAAAATCACC 3068926 29 100.0 32 ............................. GGAGTTAATGACAAATTTGAGGAAAAATGTTG 3068865 29 100.0 32 ............................. AATGCGACAACTCGTCTACTGGTCACAAAAGG 3068804 29 100.0 32 ............................. TGTTTTCCGCCGCGTCGCAACTCATGACAGCG 3068743 29 100.0 32 ............................. TGGATGATTCCGTTTATCAGGAGTTCGCTGCG 3068682 29 100.0 32 ............................. TTTAAGATACTGGTCGCCGCGACCGCTCATGG 3068621 29 100.0 32 ............................. CCATATAGCCCCCTCTTATATGGCGTATGAAA 3068560 29 100.0 32 ............................. GCGGGTGAAGTTACCTCCGAGGGCTTTCACGA 3068499 29 100.0 32 ............................. CCGTGACAGACGGCGCTTTAACGCCCGGTGGT 3068438 29 100.0 32 ............................. GCCCCGGTCATGAATTGCCAGCGCCGCCACCA 3068377 29 100.0 32 ............................. CATTGGTATGCCGTCGAATTCAACACGCGTAG 3068316 29 100.0 32 ............................. CGTTCGCGAGGAATACTGCCAGTACCGAATTT 3068255 29 100.0 32 ............................. GTGTGGTGGCCAATGGCAATTAATAACAGAAA 3068194 29 100.0 32 ............................. GCAGCGAGACCACGAAAGAGGGAATACCGACA 3068133 29 100.0 32 ............................. GTGTGCGTGATGAGGTTCGCGGAGCATGTTCT 3068072 29 100.0 32 ............................. AGCCCCTTTCTGATTTTTTCCGTAATGTCGGT 3068011 29 100.0 32 ............................. CCATGTTTGATTGTGCGGATTGACCAAAAGCC 3067950 29 100.0 32 ............................. TGGATAAAACGGTGTTCATATTTATTGGTGCG 3067889 29 100.0 32 ............................. CGGCCTTTGCCCCCAGGAAACGATGATGACCA 3067828 29 100.0 32 ............................. GGCAGATTTACGACAACAACCCGGCAGCGGTG 3067767 29 100.0 32 ............................. CGAATTACTACCGGGCTAACACAAGTGGTAAG 3067706 29 100.0 32 ............................. GAATTGTTGCTACGACTAAACAGGGAGGGAGC 3067645 29 100.0 32 ............................. AAATTAGATGATCTGGACAACTGCCCGCAATG 3067584 29 100.0 32 ............................. GAATTGTTGCTACGACTAAACAGGGAGGGAGC 3067523 29 100.0 32 ............................. AAATTAGATGATCTGGACAACTGCCCGCAATG 3067462 29 100.0 32 ............................. ACTCAGGCGGAGAACTGGCCGCATTAACTGTT 3067401 29 100.0 32 ............................. CTGGGTGTCCAGCGGACATCCTCAGCCGGCGG 3067340 29 100.0 32 ............................. AGATAGCGTGAGGCAATTCTTAGCGTTGAACT 3067279 29 100.0 32 ............................. GGAGGTTGCACCTGAGCGCCCCTTCACTGGAC 3067218 29 100.0 32 ............................. CCAGCAGCTTGCGGAAAAGATCCGCACTGCCT 3067157 29 100.0 32 ............................. TGGATAAAACGGTGTTCATATTTATTGGTGCG 3067096 29 100.0 32 ............................. CGGCCTTTGCCCCCAGGAAACGATGATGACCA 3067035 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 3066974 29 96.6 32 ..........T.................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3066913 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3066852 29 93.1 0 A...........T................ | A [3066825] ========== ====== ====== ====== ============================= ================================ ================== 47 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCGTCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [4-0] 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 3088270-3086166 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN890522.1 Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712384 chromosome 1, complete sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3088269 29 100.0 32 ............................. GTCACCTAGTGCCTCCGATAAAACCCACATAT 3088208 29 100.0 32 ............................. GTTCGCCCGGTATCCTCGCCAGTCCGCGACCT 3088147 29 100.0 32 ............................. GGCGCCCATGAGGTATCCCGACAGGAGCACGA 3088086 29 100.0 32 ............................. CCAGCGTCATGCTCTGCTCGTTGTTCCGGCGT 3088025 29 100.0 32 ............................. CAGGAGACGACATAATACGTGGTGACTTTTGG 3087964 29 100.0 32 ............................. GTCAGGGCGTTGATCGTCCAGTCCCGGTCCTC 3087903 29 100.0 32 ............................. ATTAAATAATCATTTACCATATTGCAGGTACA 3087842 29 100.0 32 ............................. ACCGGGGCCACGACTTACGTCAGCGCGCCGAT 3087781 29 100.0 32 ............................. GCGGCTGCTATTCCGGGGTGGGAGGCCGGCGC 3087720 29 100.0 32 ............................. GCGTTTTCCAGGCGTTGCGTTACGAGCGCGAT 3087659 29 100.0 32 ............................. AAAAAATCCTTCCTTGTGGCTGTGCTGCTGGC 3087598 29 100.0 32 ............................. GCAACTGGAACAACGATAGCGGGCAACTGGTT 3087537 29 100.0 32 ............................. AGTTATGTTGAGTTCCGGGATTTCAATATCAG 3087476 29 100.0 32 ............................. ATTATATAAAAGGCGGCGGCAATGACGGAGGT 3087415 29 100.0 32 ............................. ACCACAACATCATTCAAACCGTATAACTACTG 3087354 29 100.0 32 ............................. AAAAAAGGAACACACATGGCCTTAGAAGATGA 3087293 29 100.0 32 ............................. ACGCGATGTCGGTACATGATATGACCACAACA 3087232 29 100.0 32 ............................. AAAAAAGGAACACACATGGCCTTAGAAGATGA 3087171 29 100.0 32 ............................. ACGCGATGTCGGTACATGATATGACCACAACA 3087110 29 100.0 32 ............................. CCGGAGAAATTCAGGGTCATGGATGAAGCCGG 3087049 29 100.0 32 ............................. ATCTTAACCAGCAGGCTGGGTTTGGCGGGATC 3086988 29 100.0 33 ............................. GCTTTAGCCACGTTCCCACGCGCAAACACCAGC 3086926 29 100.0 32 ............................. GTGATCGCGAGTGCTGAGGCTGAGGTTGAAAT 3086865 29 100.0 32 ............................. GTGAGGTTTTTTTTGAGGAGTCCGCCCAATGA 3086804 29 100.0 32 ............................. AGGCTCAATTGCGTGAGGCTTGGGAACGCGTC 3086743 29 100.0 32 ............................. CGACGCGCTGGGGCGACTGGTTTTCACCGAGC 3086682 29 96.6 33 ...........................T. GGTTAACACTGACCCGGCTGCGGTCGTCGCAGC 3086620 29 100.0 32 ............................. ACCGCGTGCGCATGGACATTGCCCGCTGGGAT 3086559 29 100.0 32 ............................. GTAAAAAGCCGGTTATGCGCAATAATCAATTC 3086498 29 100.0 32 ............................. CTACTTGGCGTGATGCGCTGCCGAAAATTTTG 3086437 29 100.0 32 ............................. CGCGTGAAAAATTGCGTTACCGCCTGGGTGAG 3086376 29 100.0 32 ............................. CGCCTGGCAAATTTCACCGTTAACACGCTGAG 3086315 29 100.0 32 ............................. CCGGTACGCGAGGGGATTAACCTCCGGGCCGA 3086254 29 100.0 32 ............................. TCTCCAGACTCACCGATATAACCCCCTGGCAC 3086193 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCTATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACCCATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAATAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTTGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGACAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCTCTGCCGATTGGC # 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 : 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 [6-0] 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], //