Array 1 2935575-2933714 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMS01000013.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL00337 2014LSAL00337_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2935574 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 2935513 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 2935451 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 2935390 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 2935329 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 2935268 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 2935207 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 2935146 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 2935085 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 2935024 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 2934963 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 2934902 29 100.0 32 ............................. AGACGATGGCGGAGGCGCAGAAATCTAACCTG 2934841 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 2934780 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 2934719 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 2934658 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 2934597 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 2934536 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 2934475 29 100.0 32 ............................. AGATTGAGCGCCGCACTAACCAGCGCATGATC 2934414 29 100.0 32 ............................. GTTGGCAGCATGATCGCTAAATCTAAAATGCC 2934353 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 2934292 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 2934231 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 2934170 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 2934109 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 2934048 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 2933987 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 2933926 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 2933865 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 2933804 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 2933743 29 93.1 0 A...........T................ | A [2933716] ========== ====== ====== ====== ============================= ================================= ================== 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 2953036-2952215 **** Predicted by CRISPRDetect 2.4 *** >NZ_PCMS01000013.1 Salmonella enterica subsp. enterica serovar Derby strain 2014LSAL00337 2014LSAL00337_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2953035 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 2952974 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 2952913 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 2952852 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 2952791 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 2952730 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 2952669 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 2952608 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 2952547 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 2952486 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 2952425 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 2952364 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 2952303 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 2952242 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], //