Array 1 215329-213347 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQJH010000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain 69227/09 NODE_2_length_749631_cov_30.403790, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215328 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 215267 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 215206 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 215145 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 215084 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 215023 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 214962 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 214901 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 214840 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 214779 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 214718 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 214657 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 214596 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 214535 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 214474 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 214413 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 214352 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 214291 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 214230 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 214169 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 214108 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 214047 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 213986 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 213925 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 213864 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 213803 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 213742 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 213681 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 213620 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 213559 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 213498 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 213437 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 213376 29 100.0 0 ............................. | A [213349] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 235125-232961 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHQJH010000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain 69227/09 NODE_2_length_749631_cov_30.403790, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 235124 29 100.0 32 ............................. TGCATCACTCACACTCTACAAACTCACCATCT 235063 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 235002 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 234941 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 234880 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 234818 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 234757 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 234696 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 234635 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 234574 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 234513 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 234452 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 234391 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 234330 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 234269 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 234208 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 234147 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 234086 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 234025 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 233964 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 233903 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 233842 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 233781 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 233720 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 233659 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 233598 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 233537 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 233476 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 233415 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 233354 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 233293 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 233232 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 233171 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 233110 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 233049 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 232988 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 97.7 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.81, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [10-0] 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], //