Array 1 3091031-3089170 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIK01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL01821 2015LSAL01821_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3091030 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 3090969 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 3090907 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 3090846 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 3090785 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 3090724 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 3090663 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 3090602 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 3090541 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 3090480 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 3090419 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 3090358 29 100.0 32 ............................. AGACGATGGCGGAGGCGCAGAAATCTAACCTG 3090297 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 3090236 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 3090175 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 3090114 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 3090053 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 3089992 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 3089931 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 3089870 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 3089809 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 3089748 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 3089687 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 3089626 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 3089565 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 3089504 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 3089443 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 3089382 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 3089321 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 3089260 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3089199 29 93.1 0 A...........T................ | A [3089172] ========== ====== ====== ====== ============================= ================================= ================== 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 3108370-3107671 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIK01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL01821 2015LSAL01821_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3108369 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 3108308 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 3108247 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 3108186 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 3108125 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 3108064 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 3108003 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 3107942 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 3107881 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 3107820 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 3107759 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3107698 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # 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], //