Array 1 198349-196731 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZI01000005.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N42235 N42235_contig_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 198348 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 198287 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 198226 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 198165 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 198104 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 198043 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 197982 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 197921 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 197859 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 197798 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 197736 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 197675 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 197614 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 197553 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 197492 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 197431 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 197370 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 197309 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 197248 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 197187 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 197126 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 197065 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 197004 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 196943 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 196882 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 196821 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 196760 29 89.7 0 A...........TC............... | A [196733] ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.0 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.81, # 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: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1165-1682 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZI01000051.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N42235 N42235_contig_51, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1165 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 1226 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 1287 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 1348 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 1410 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 1471 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 1532 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 1593 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 1654 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 9 29 100.0 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTCATCGCCGGTGAGGTATTTTTTTGGCTTAGGTGTTCCCCGCGCTAGCGG # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 224452-225577 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZI01000020.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N42235 N42235_contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 224452 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 224513 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 224574 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 224635 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 224696 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 224757 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 224818 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 224879 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 224940 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 225001 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 225062 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 225123 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 225184 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 225245 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 225306 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 225367 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 225428 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 225489 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 225550 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], //