Array 1 3068236-3066271 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039607.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014873 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3068235 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3068174 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3068113 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3068052 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3067991 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3067930 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3067869 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3067807 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3067746 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3067685 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3067624 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3067563 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3067502 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3067441 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3067380 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3067319 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3067258 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3067197 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3067136 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3067075 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3067014 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3066952 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3066849 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3066788 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3066727 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3066666 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3066605 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3066544 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3066483 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3066422 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3066361 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3066300 29 96.6 0 A............................ | A [3066273] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 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 3085860-3084367 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039607.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014873 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3085859 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3085798 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3085737 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3085676 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3085615 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3085554 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3085493 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3085432 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3085371 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3085310 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3085249 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3085188 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3085127 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3085066 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3085005 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3084944 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3084882 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3084821 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3084760 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3084699 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3084638 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3084577 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3084516 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3084455 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3084394 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], //