Array 1 23599-21492 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQS01000051.1 Salmonella enterica subsp. enterica serovar Braenderup strain BCW_3997 NODE_51_length_40111_cov_1.54817, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 23598 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 23537 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 23476 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 23415 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 23353 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 23292 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 23231 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 23170 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 23109 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 23048 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 22987 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 22926 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 22865 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 22804 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 22743 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 22682 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 22620 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 22559 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 22497 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 22436 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 22375 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 22314 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 22253 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 22192 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 22131 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 22070 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 22009 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 21948 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 21887 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 21826 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 21765 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 21704 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 21643 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 21582 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 21521 29 89.7 0 A...........TC............... | A [21494] ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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: 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: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 40068-39857 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQS01000051.1 Salmonella enterica subsp. enterica serovar Braenderup strain BCW_3997 NODE_51_length_40111_cov_1.54817, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 40067 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 40006 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 39945 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 39884 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 94.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGGATAAACCGATGGTAAATATGAATTTAATGTCTATCCTGG # Right flank : TTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 5.60 # Score Detail : 1:0, 2:3, 3:0, 4:0.74, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: F [61.7-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 918-35 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXQS01000042.1 Salmonella enterica subsp. enterica serovar Braenderup strain BCW_3997 NODE_42_length_46962_cov_1.5651, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 917 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 856 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 795 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 734 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 673 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 612 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 551 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 490 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 429 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 368 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 307 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 246 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 185 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 124 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 63 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GATGGTAAATATGAATTTAAAGATCGGAAGAGCGT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: 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: R [38.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //