Array 1 130979-129119 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJR01000008.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2607 NODE_8_length_188856_cov_27.6284, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 130978 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 130917 29 100.0 32 ............................. ACCATGCATTGAAATGCCAGATGAAAATTGGG 130856 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 130795 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 130734 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 130673 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 130612 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 130551 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 130490 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 130429 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 130368 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 130307 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 130246 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 130185 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 130124 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 130063 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 130002 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 129941 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 129880 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 129819 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 129758 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 129697 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 129636 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 129575 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 129514 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 129453 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 129392 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 129331 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 129270 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 129209 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 129148 29 100.0 0 ............................. | A [129121] ========== ====== ====== ====== ============================= ================================ ================== 31 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 150897-148611 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJR01000008.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2607 NODE_8_length_188856_cov_27.6284, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 150896 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 150835 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 150774 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 150713 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 150651 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 150590 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 150529 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 150468 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 150407 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 150346 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 150285 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 150224 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 150163 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 150102 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 150041 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 149980 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 149919 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 149858 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 149797 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 149736 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 149675 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 149614 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 149553 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 149492 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 149431 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 149370 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 149309 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 149248 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 149187 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 149126 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 149065 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 149004 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 148943 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 148882 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 148821 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 148760 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 148699 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 148638 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 38 29 97.8 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.86, # 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], //