Array 1 3124029-3122168 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMF01000010.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01467 2014LSAL01467_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3124028 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 3123967 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 3123905 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 3123844 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 3123783 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 3123722 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 3123661 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 3123600 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 3123539 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 3123478 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 3123417 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 3123356 29 100.0 32 ............................. AGACGATGGCGGAGGCGCAGAAATCTAACCTG 3123295 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 3123234 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 3123173 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 3123112 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 3123051 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 3122990 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 3122929 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 3122868 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 3122807 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 3122746 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 3122685 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 3122624 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 3122563 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 3122502 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 3122441 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 3122380 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 3122319 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 3122258 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3122197 29 93.1 0 A...........T................ | A [3122170] ========== ====== ====== ====== ============================= ================================= ================== 31 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 3141490-3140669 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMF01000010.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL01467 2014LSAL01467_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3141489 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 3141428 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 3141367 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 3141306 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 3141245 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 3141184 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 3141123 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 3141062 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 3141001 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 3140940 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 3140879 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 3140818 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 3140757 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3140696 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # 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 [63.3-68.3]%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], //