Array 1 1-640 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKH01000022.1 Salmonella enterica subsp. enterica serovar Derby strain CVM N48685 N48685_contig_22, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 62 29 100.0 32 ............................. GAGAGGCCGACTCAGCAACCAAAAAAGGGAAG 123 29 100.0 32 ............................. AACGCGCAGCGCAGCAAAAAGCCGAGCTGGAG 184 29 96.6 32 .............T............... CTGTTAACAGGGGGAATGCTGAAGCAGCGAAA 245 29 96.6 32 .............T............... CGTGACTACTGCAACTTAAATCACGACGAAAT 306 29 96.6 32 .............T............... TCTCTGCCGCTACCGCGCTGGACTGCGCCGCC 367 29 100.0 32 ............................. AGTAATCAACTCAATGCGCTCACAACGCAATG 428 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 489 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 550 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 611 29 93.1 0 A...........T................ | A [637] ========== ====== ====== ====== ============================= ================================ ================== 11 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 121465-122285 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKH01000023.1 Salmonella enterica subsp. enterica serovar Derby strain CVM N48685 N48685_contig_23, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 121465 29 100.0 32 ............................. ACAACGCCGGGCCGGGGCGGGGGGCGGAAGCT 121526 29 100.0 32 ............................. CCGCATCATTACTGACCTGAACGCCCCGCAAG 121587 29 100.0 32 ............................. CCTGACAATTTGAAATACTCCGCTGAAATGAT 121648 29 100.0 32 ............................. TCAACGGCCTGCCGGGTAAATCGGTTCACGTG 121709 29 100.0 32 ............................. TTGACGAGCGGTGATGTGTGCCGGAGTGGATA 121770 29 100.0 32 ............................. TGATATGAGGCAAACGGCAGGTTACGCGCCAG 121831 29 100.0 32 ............................. TCTTTTTGCATCAGCGACCAGAGCCGCTTGTA 121892 29 100.0 32 ............................. GAGTGAGAATGTTCTTCATAGCAGGGGCAAAC 121953 29 100.0 32 ............................. ATGCGCGTAACGGTCATTATGTTAAATAGAAC 122014 29 100.0 32 ............................. AACATCGTCGCCAGGCGTTTTTGCATGTCGTC 122075 29 100.0 32 ............................. CCTCGCCGTCATTCGACATTACGTTCACTCAC 122136 29 100.0 32 ............................. TAACCATCGTGACGTGTGAAGTTGCCGCCCAG 122197 29 100.0 32 ............................. ATTTTAGAATTACGCATTGAGCCGATGATGTA 122258 28 79.3 0 ...........C...A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 14 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGCGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTGGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1129-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKH01000045.1 Salmonella enterica subsp. enterica serovar Derby strain CVM N48685 N48685_contig_45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1128 29 100.0 32 ............................. CGAATATATATGATATCGAATAACGAAGCAAA 1067 29 100.0 33 ............................. CGCCTGATCCCGGTACTCCAGAGTATTTCCAGT 1005 29 100.0 32 ............................. TCTAACACTCAAAGGTGGAATGACAGAGCCTT 944 29 100.0 32 ............................. TTTGCCACGCACCGCAAACAGGCAGTCTTCAC 883 29 100.0 32 ............................. CACGCCGCCATCACTGACAGCACAAAAACAAA 822 29 100.0 32 ............................. GATGAGTACATGGAAAGCTTTAAGCAAAAGTT 761 29 100.0 32 ............................. GCGATAGCTGTTTTCATAACGTGATCTCCAAT 700 29 100.0 32 ............................. GGGTAAAAAACTATACGATCCGCGCTTAGGGG 639 29 100.0 32 ............................. GGACAATTTGTGCTTTTGCAATTCACTTTGAA 578 29 100.0 32 ............................. TTTGTATTTAAACAATAAGGCGAATTATGAAA 517 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 456 29 100.0 32 ............................. AGACGATGGCGGAGGCGCAGAAATCTAACCTG 395 29 100.0 32 ............................. CTGATTGACATGACGTCCGGCGACGACTGGAA 334 29 100.0 32 ............................. GTCTATAACCGTCGCCTCACGACTCGGCATGT 273 29 100.0 32 ............................. CGCCCGGAATCAGCGCCGTCTATTGAGGGGTT 212 29 100.0 32 ............................. AACGATATCACCGTACTGGCGAAAACGCTGCG 151 29 100.0 32 ............................. CCCGATAATTCTATATCGGGCATTGATTACTG 90 29 100.0 32 ............................. ACTGGCAGCACATAACCGGTTCGGACGCAGCC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 19 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTAGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATACATAGTTTTAGT # Right flank : G # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //