Array 1 3012430-3010953 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037874.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS014854 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3012429 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3012368 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3012306 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3012245 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3012184 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3012123 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3012062 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3012001 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3011940 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3011879 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3011818 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3011757 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3011696 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3011634 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3011531 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3011470 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3011409 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3011348 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3011287 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3011226 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3011165 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3011104 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3011043 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3010982 29 96.6 0 A............................ | A [3010955] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 3030177-3028562 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037874.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS014854 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3030176 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3030115 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3030054 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3029993 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3029932 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3029871 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3029810 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3029749 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3029688 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3029627 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3029566 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3029505 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3029444 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3029383 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3029322 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3029261 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3029200 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3029139 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3029077 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3029016 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3028955 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3028894 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3028833 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3028772 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3028711 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3028650 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3028589 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 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 [10-1] 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], //