Array 1 109809-107827 **** Predicted by CRISPRDetect 2.4 *** >NZ_WIAJ01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain XJ9S NODE_2_length_613339_cov_137.559195, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109808 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 109747 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 109686 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 109625 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 109564 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 109503 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 109442 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 109381 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 109320 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 109259 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 109198 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 109137 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 109076 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 109015 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 108954 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 108893 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 108832 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 108771 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 108710 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 108649 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 108588 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108527 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 108466 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 108405 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 108344 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 108283 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 108222 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 108161 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 108100 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 108039 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 107978 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 107917 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 107856 29 100.0 0 ............................. | A [107829] ========== ====== ====== ====== ============================= ================================ ================== 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 129544-127441 **** Predicted by CRISPRDetect 2.4 *** >NZ_WIAJ01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain XJ9S NODE_2_length_613339_cov_137.559195, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 129543 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 129482 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 129421 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 129360 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 129298 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 129237 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 129176 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 129115 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 129054 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 128993 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 128932 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 128871 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 128810 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 128749 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 128688 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 128627 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 128566 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 128505 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 128444 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 128383 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 128322 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 128261 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 128200 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 128139 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 128078 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 128017 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 127956 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 127895 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 127834 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 127773 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 127712 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 127651 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 127590 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 127529 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 127468 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 97.7 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.93 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.78, # 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], //