Array 1 657852-660076 **** Predicted by CRISPRDetect 2.4 *** >NZ_NQWR01000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain NCTR148 NCTR_148_contig_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 657852 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 657913 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 657974 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 658035 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 658097 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 658158 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 658219 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 658280 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 658341 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 658402 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 658463 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 658524 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 658585 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 658646 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 658707 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 658768 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 658829 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 658890 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 658951 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 659012 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 659073 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 659134 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 659195 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 659256 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 659317 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 659378 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 659439 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 659500 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 659561 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 659622 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 659683 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 659744 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 659805 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 659866 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 659927 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 659988 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 660049 28 79.3 0 ..G............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 37 29 97.9 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.90, # 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: F [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [0-10] 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 677709-679019 **** Predicted by CRISPRDetect 2.4 *** >NZ_NQWR01000005.1 Salmonella enterica subsp. enterica serovar Kentucky strain NCTR148 NCTR_148_contig_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 677709 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 677770 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 677831 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 677892 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 677953 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 678014 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 678075 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 678136 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 678197 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 678258 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 678319 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 678380 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 678441 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 678502 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 678563 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 678624 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 678685 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 678746 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 678807 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 678868 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 678929 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 678990 29 100.0 0 ............................. | A [679017] ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //