Array 1 3175219-3173358 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIF01000030.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL02462 2015LSAL02462_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3175218 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 3175157 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 3175095 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 3175034 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 3174973 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 3174912 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 3174851 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 3174790 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 3174729 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 3174668 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 3174607 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 3174546 29 100.0 32 ............................. AGACGATGGCGGAGGCGCAGAAATCTAACCTG 3174485 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 3174424 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 3174363 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 3174302 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 3174241 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 3174180 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 3174119 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 3174058 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 3173997 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 3173936 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 3173875 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 3173814 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 3173753 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 3173692 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 3173631 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 3173570 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 3173509 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 3173448 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3173387 29 93.1 0 A...........T................ | A [3173360] ========== ====== ====== ====== ============================= ================================= ================== 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 3192619-3191859 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCIF01000030.1 Salmonella enterica subsp. enterica serovar Derby strain 2015LSAL02462 2015LSAL02462_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3192618 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 3192557 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 3192496 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 3192435 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 3192374 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 3192313 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 3192252 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 3192191 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 3192130 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 3192069 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 3192008 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 3191947 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 3191886 28 79.3 0 ...........C...A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 13 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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], //