Array 1 2973543-2971743 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJY01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL04065 2014LSAL04065_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2973542 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 2973481 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 2973419 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 2973358 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 2973297 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 2973236 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 2973175 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 2973114 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 2973053 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 2972992 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 2972931 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 2972870 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 2972809 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 2972748 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 2972687 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 2972626 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 2972565 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 2972504 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 2972443 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 2972382 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 2972321 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 2972260 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 2972199 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 2972138 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 2972077 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 2972016 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 2971955 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 2971894 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 2971833 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2971772 29 93.1 0 A...........T................ | A [2971745] ========== ====== ====== ====== ============================= ================================= ================== 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 2991004-2990183 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCJY01000003.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL04065 2014LSAL04065_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2991003 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 2990942 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 2990881 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 2990820 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 2990759 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 2990698 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 2990637 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 2990576 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 2990515 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 2990454 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 2990393 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 2990332 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 2990271 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2990210 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], //