Array 1 5514-4143 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXYL01000013.1 Salmonella enterica subsp. enterica serovar Westhampton strain BCW_2821 NODE_13_length_113797_cov_2.68754, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5513 29 100.0 32 ............................. CCGTAGATCCCATCAGTGTCGTAGGCAATACG 5452 29 100.0 32 ............................. GCATATCCCAGGCTTTCCACGTCAACTTGTAC 5391 29 100.0 32 ............................. TTCCCGAAAGACAGCGCGGTTGCCCCGGCTCC 5330 29 100.0 32 ............................. AGGGTGCGATCATCGTTCAGGAGGGCGGATCA 5269 29 100.0 32 ............................. TCGAAACGTTTAAATAGTGTTCACCATCATGG 5208 29 100.0 32 ............................. ATGCGACCAAAGAAGCGGCTGAAGAGAAATCC 5147 29 100.0 32 ............................. CAGGTTGCTCGTTGTTTTGGTCTAAGAACAGA 5086 29 100.0 32 ............................. CCCAACCTGCGGCAGCACCGTTGAATATTTTG 5025 29 100.0 33 ............................. CGATAGCGGCGGCAGGTGCGCCCGTATTGCCGG 4963 29 100.0 32 ............................. TAGATATTGGTCCGCCAGTTCTGCCAGTGTGT 4902 29 100.0 32 ............................. CTCCTGACGTAACGTATTGACATTGGGTATAA 4841 29 100.0 32 ............................. CGATTACGCCAAACGGTTGGAGGTGCGGATTG 4780 29 100.0 32 ............................. TTGAAAATCTGGCTAGAACACTAAGTCCAAAA 4719 29 100.0 32 ............................. AGTTACTCCGCCTTAAATACTCCCGCGTTTCT 4658 29 100.0 32 ............................. GAGGAATTGCCAAAAGTTGCACGGCACATCAA 4597 29 100.0 32 ............................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 4536 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 4475 29 100.0 32 ............................. GCAACATCCTGCTCACCAGCTTTGACGGTCGT 4414 29 96.6 32 ..............C.............. CCAGTCCGCCCACCACTGCATCATCTCCCGTC 4353 29 100.0 32 ............................. TAATTACGTTTTTTCAACGTCTCGATAATCGC 4292 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 4231 29 96.6 32 ......G...................... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 4170 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [8-0] 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], // Array 1 1662-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXYL01000057.1 Salmonella enterica subsp. enterica serovar Westhampton strain BCW_2821 NODE_57_length_6200_cov_2.21626, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1661 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 1600 29 100.0 32 ............................. GGTGAAAAATTGAGCTTATATTCTGAAAAATA 1539 29 100.0 32 ............................. CCGTTGAGCCTAATTTTGGAGCACTTGATTAA 1478 29 100.0 32 ............................. GATTATCAAAAAACCAGGAGTTATCCTGCTCG 1417 29 100.0 32 ............................. AGGAACTGATGTGCCGCGAGGCGTCAGATACA 1356 29 100.0 32 ............................. TTCTTTCAATGAGCAAAACCCGTCGCTTAGCA 1295 29 100.0 32 ............................. GCACTCCCGGTATCGCCGCAGATACAGGCGTT 1234 29 100.0 32 ............................. CAACACGAAACGACATTCTCCCAGCTATTCAT 1173 29 100.0 32 ............................. GGGACGTCACCATTTTTGAATTTATCAGCCGC 1112 29 100.0 32 ............................. CAAAATGTGTTGTTATGATGGTAGCCTTCAGA 1051 29 100.0 32 ............................. GACATTCAAAACTCTGGCGGGAGACATGGGCA 990 29 100.0 32 ............................. ATGGCCTGATAACCCGAGCTGTAACGTAGCGC 929 29 100.0 32 ............................. TTCCGCATCATTCCGGTGATGAGCATAATGCG 868 29 100.0 32 ............................. CGCTGGGCCGTGTAGTAATGAAGGGGCAAAAA 807 29 100.0 32 ............................. TACCTATGGAAACGGCTGTAGGTTCTGCTAGT 746 29 100.0 32 ............................. TGCAATCCCTCATTGGGATGCATTCGAGAGCA 685 29 100.0 32 ............................. GCCGCTTTAGCGACCCTTTATCATGCTTCTAA 624 29 100.0 32 ............................. CCCCCGCATAAAAAAACCCGCCGCAGCGGGTT 563 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 502 29 100.0 32 ............................. GCTACTGGATCACCGCAGAACAGATAAAAGAA 441 29 100.0 32 ............................. GCCCCCGCAATACTGAGGCGTTGGAAAACCAC 380 29 100.0 32 ............................. TTTTAATCTCAGCGGTGAGTACCGGCTTGGTG 319 29 100.0 32 ............................. CTCTCAGTGTCACTTTTTTAGGACACTCAGAT 258 29 100.0 32 ............................. CTTAGGGAGGCAAACTGTCCGCGCCTCCAGCT 197 29 100.0 32 ............................. CACACAGGTGCGACAGGTAAACGTTCCGTTAG 136 29 100.0 32 ............................. GATATTTTAAACCAGACTGACGCCATGATCGT 75 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 27 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGCTGGCGTTCATCCGGAAGCGTAGATTTTCGTTGCCCATGGGCATCGCGGATATGGCGTTGCAGGCGACCGGCGCGCTGGATCAATAAATCAATCGGCGCCAGATCGGTGATCATCCAGTCAAAGTCCAGATCGAGACTTTGTTCAACGACTTGTGTGGCGATTAATACCTTACCACGTCGTTCAGAAACGGGGGCATTGTTACCAAACCAGTTTAACGTTTTATTTTCAATAGCAATACGATCGATAAAAGCAAAACGGCTGTGGAAAAGCAAAAGATCCTGCTGTGGAACGATTCCCTCGTGTAGCAACTGCTGGTAAGTGTCCAGCGCATCATCAACCGTGTTGCGGATCCAACAAATGCACTGTCCGGTTGCCACAACGCGATAAATAATGTCCAGTGCTTCCTGGCGCTGCTGTATCCAATTAACGGCTACAGTCCTTTGGACTTCGGGACGTGTGGCCAGTGGTTGCTCTAACAGACCGGAGGAAGTGAGGTG # Right flank : GGGCAACTGGGCGATCATCTGGGCGCTGTTTATGTGTTCCCCGCGCC # 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: R [28.3-41.7]%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], // Array 1 38-2080 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXYL01000016.1 Salmonella enterica subsp. enterica serovar Westhampton strain BCW_2821 NODE_16_length_109145_cov_2.78196, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 38 29 100.0 32 ............................. GGGTGGTTTAAGGAGGCAGGGCCGGAAATTAC 99 29 100.0 32 ............................. CGCTGATATTGTTCGCGCAGATCGTCGTACTG 160 29 100.0 32 ............................. TGCTTCGATTAGTGCAGGTGGTACGGACAGCA 221 29 100.0 32 ............................. CCCAAACTTTCGCCTCTTTTTGCTTATTTACC 282 29 100.0 32 ............................. GTGGTAATGGTGCCCGGTCCGGCCGGGTCGCA 343 29 96.6 32 ..........A.................. CGGTCAGCATTGGCGACGGGGAGTTTGCGCAG 404 29 100.0 32 ............................. CAGATGTCCATTGAGGCGGCAGGCGCGTCACA 465 29 100.0 32 ............................. CGTGCTGGACAGTACCTACAGTAACTTTGTGG 526 29 100.0 32 ............................. AGGGAATACCGACACCTGCCTGATTACCTGTT 587 29 100.0 32 ............................. AGTTTGCGTCGCTGCTGAAAGCGGCATAATTT 648 29 100.0 32 ............................. GGCGCCGCGCCGACGTGGAGCGTAAATAATTT 709 29 100.0 32 ............................. TTCGGAGTCCGGATCATCATTCAGGATAACGA 770 29 100.0 32 ............................. AAATCGCGCGGCGATCGACTCAAGGCGGCGAC 831 29 100.0 32 ............................. GGCCACCACTGGTGCGCAGTGGTTGAGGCGTC 892 29 100.0 32 ............................. CATTCGATGCCAGTAAAATTGAAGCACACCAC 953 29 100.0 32 ............................. CTGAATTGCTGCATCCAGGCGATCCGACCATG 1014 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 1075 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 1136 29 100.0 32 ............................. CCGTTAAGGTCGCTGGCGCTAACATCTAAAAT 1197 29 96.6 32 ............................A GCAAGCACAAACATAGAGCAAATTAAAATAGC 1258 29 100.0 32 ............................. AATGCTCCCTCTCCGCGTTTTTGCGTCGGCTG 1319 29 100.0 32 ............................. AAAATCGTGAGTGACTATCGTTCTGTTATTGC 1380 29 100.0 32 ............................. CGGCTGTTGAGGATGTTCGCGAGCCAGTAAAT 1441 29 100.0 32 ............................. AGAGCTCAACCCGATAGCCGCCAGCCCCGTGA 1502 29 100.0 32 ............................. ATGCTGCTGGCCGTTTCGATATGAACGACGCA 1563 29 96.6 32 ............................C CCCTGATTGTCCTTAAACCAAGCGATCGCATC 1624 29 100.0 32 ............................. TCCAGCATTGAATCTTTAAAAGAGGGGGTGCT 1685 29 100.0 32 ............................. TTTGCGAACTCAGGGTAGGTTTAGCTCCAGTC 1746 29 100.0 32 ............................. TTAATTTGCTTCGCATCATTCATATATCTCGC 1807 29 100.0 32 ............................. TTCAGTATTCACCAGATAACGTGGTGATTCTC 1868 29 96.6 32 A............................ GCCGGGTACAATGGATTTTCGATAACGCCGCA 1929 29 100.0 32 ............................. TTTGGCGACTGTTTTAGCAGCAGAGCCTGCCG 1990 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2051 29 93.1 0 A...........T................ | A [2077] ========== ====== ====== ====== ============================= ================================ ================== 34 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AACCGGGCAACTGGGCGATCATCTGGGCGCTGTTTATG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [26.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 275-2 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXYL01000080.1 Salmonella enterica subsp. enterica serovar Westhampton strain BCW_2821 NODE_80_length_331_cov_1.55738, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 274 29 100.0 32 ............................. GCGGGGCCGACATTCTGCTGCCCGAGGGTACG 213 29 100.0 32 ............................. TGGCGGCGGTTACTGGCGCTGACAGTGCGGGA 152 29 100.0 32 ............................. CCGAGCCGCTGCTGGCTGTCACCACGCTGGAA 91 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 30 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGGGCAACTGGGCGATCATCTGGGCGCTGTTTA # Right flank : GG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: R [0.0-35.0]%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], //