Array 1 3162559-3161125 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJR01000005.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL05538 2014LSAL05538_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3162558 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 3162497 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 3162435 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 3162374 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 3162313 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 3162252 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 3162191 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 3162130 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 3162069 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 3162008 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 3161947 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 3161886 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 3161825 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 3161764 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 3161703 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 3161642 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 3161581 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 3161520 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 3161459 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 3161398 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 3161337 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 3161276 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 3161215 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3161154 29 93.1 0 A...........T................ | A [3161127] ========== ====== ====== ====== ============================= ================================= ================== 24 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTAGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-70.0]%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 3180020-3179199 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJR01000005.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL05538 2014LSAL05538_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3180019 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 3179958 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 3179897 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 3179836 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 3179775 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 3179714 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 3179653 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 3179592 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 3179531 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 3179470 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 3179409 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 3179348 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 3179287 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3179226 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [6-0] 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], //