Array 1 3049200-3047229 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037879.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS014863 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3049199 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3049138 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3049077 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3049016 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3048955 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3048894 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3048833 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3048771 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3048710 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 3048643 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3048582 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3048521 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3048460 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3048399 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3048338 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3048277 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3048216 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3048155 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3048094 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3048033 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3047972 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3047910 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3047807 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3047746 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3047685 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3047624 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3047563 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3047502 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3047441 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3047380 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3047319 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3047258 29 96.6 0 A............................ | A [3047231] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [3-1] 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 3067601-3066108 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037879.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS014863 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3067600 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3067539 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3067478 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3067417 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3067356 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3067295 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3067234 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3067173 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3067112 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3067051 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3066990 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3066929 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3066868 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3066807 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3066746 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3066685 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3066623 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3066562 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3066501 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3066440 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3066379 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3066318 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3066257 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3066196 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3066135 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], //