Array 1 3014391-3012914 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037877.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS015054 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3014390 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3014329 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3014267 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3014206 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3014145 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3014084 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3014023 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3013962 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3013901 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3013840 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3013779 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3013718 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3013657 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3013595 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3013492 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3013431 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3013370 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3013309 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3013248 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3013187 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3013126 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3013065 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3013004 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3012943 29 96.6 0 A............................ | A [3012916] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3032139-3030524 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037877.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS015054 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3032138 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3032077 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3032016 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3031955 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3031894 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3031833 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3031772 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3031711 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3031650 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3031589 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3031528 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3031467 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3031406 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3031345 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3031284 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3031223 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3031162 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3031101 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3031039 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3030978 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3030917 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3030856 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3030795 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3030734 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3030673 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3030612 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3030551 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], //