Array 1 323381-324506 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYKJ01000009.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM43204 CVM43204_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 323381 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 323442 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 323503 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 323564 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 323625 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 323686 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 323747 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 323808 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 323869 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 323930 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 323991 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 324052 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 324113 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 324174 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 324235 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 324296 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 324357 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 324418 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 324479 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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 : GTGTTCCCCGTGCCAGCGGGGATAAACCG # 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: F [73.3-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 340765-342749 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYKJ01000009.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM43204 CVM43204_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 340765 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 340826 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 340887 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 340948 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 341010 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 341071 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 341132 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 341193 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 341254 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 341315 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 341376 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 341437 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 341498 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 341559 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 341621 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 341682 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 341744 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 341805 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 341866 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 341927 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 341988 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 342049 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 342110 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 342171 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 342232 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 342293 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 342354 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 342415 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 342476 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 342537 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 342598 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 342659 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 342720 29 89.7 0 A...........TC............... | A [342746] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.3 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //