Array 1 3038764-3037959 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039603.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014868 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3038763 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3038702 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3038641 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3038580 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3038519 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3038457 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCATTCCAGCGCACGTTACTCGATC 3038354 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3038293 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3038232 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3038171 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3038110 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3038049 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3037988 29 96.6 0 A............................ | A [3037961] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 [3-0] 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 3057060-3054896 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039603.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014868 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3057059 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3056998 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3056937 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3056876 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 3056815 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 3056754 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 3056693 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3056632 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3056571 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 3056510 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3056449 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3056388 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3056327 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3056266 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3056205 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3056144 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3056083 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3056022 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3055961 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3055900 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3055839 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3055778 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3055717 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3055656 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3055595 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3055534 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3055473 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3055411 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3055350 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3055289 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3055228 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3055167 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3055106 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3055045 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3054984 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3054923 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [12-0] 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], //