Array 1 2937682-2935882 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJD01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL00728 2015LSAL00728_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2937681 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 2937620 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 2937558 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 2937497 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 2937436 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 2937375 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 2937314 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 2937253 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 2937192 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 2937131 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 2937070 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 2937009 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 2936948 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 2936887 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 2936826 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 2936765 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 2936704 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 2936643 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 2936582 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 2936521 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 2936460 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 2936399 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 2936338 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 2936277 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 2936216 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 2936155 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 2936094 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 2936033 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 2935972 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2935911 29 93.1 0 A...........T................ | A [2935884] ========== ====== ====== ====== ============================= ================================= ================== 30 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTAGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 2955021-2954322 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJD01000001.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL00728 2015LSAL00728_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2955020 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 2954959 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 2954898 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 2954837 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 2954776 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 2954715 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 2954654 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 2954593 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 2954532 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 2954471 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 2954410 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2954349 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTACATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //