Array 1 437400-438403 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATMT010000003.1 Salmonella enterica subsp. enterica serovar Virchow strain 2384 NODE_3_length_456805_cov_60.9147, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 437400 29 100.0 32 ............................. TTTTGTTTAATTCTAAAACGGGACAAATGGAA 437461 29 100.0 32 ............................. GGAACAACCATTCCCTCAATGAACGGGTTATT 437522 29 100.0 32 ............................. CGGACAGGCCTGCCAGTCGGGCAATATCCGTC 437583 29 100.0 32 ............................. TTGACGGCCTGGCAGCGCGTGACGTTATTAGC 437644 29 100.0 32 ............................. CCAGGCTGGTACTGTGCGCCATAAAGACGCCT 437705 29 100.0 32 ............................. CCGACCACAATCAGGGAACTGATCCAGCGTGG 437766 29 100.0 32 ............................. TTCAGATTGTCGCTTTTTGTTGCTGCCATTGC 437827 29 100.0 32 ............................. CGCATTATTAATGGCGTTGATGTTCTGGCGGG 437888 29 100.0 32 ............................. CCTTATCAACTAATTCGTTCCTTGACACTCGT 437949 29 100.0 32 ............................. TACCGCGACACCGTCAACGACAGCAACCACTT 438010 29 100.0 32 ............................. CAGGTCACTAAAATTTGTAGGGTTATCCACAG 438071 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 438132 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 438193 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 438254 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 438315 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 438376 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 17 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGATCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGACCCCTGCCGATTGG # 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 454673-456776 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATMT010000003.1 Salmonella enterica subsp. enterica serovar Virchow strain 2384 NODE_3_length_456805_cov_60.9147, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 454673 29 100.0 32 ............................. GCGGCTCTATTGTGCACGTGCTGGCGCTTACG 454734 29 100.0 32 ............................. CTTGGAAAAGACAACAATATATTGGTAAATCA 454795 29 100.0 32 ............................. GTCACGTACTAGTGACGACATAGACAGACTGG 454856 29 100.0 32 ............................. CGGCGGGACCCCGCGATTTTCTCCCTGACGAA 454917 29 100.0 32 ............................. CTATCCGGGCGTTTACCGTGTGAGCGCCTCCA 454978 29 100.0 32 ............................. GGGGCTTCTCCGCCATCGTAGCGGATTTCAGA 455039 29 100.0 32 ............................. GTCCGGGCGACGTGGCGGCCGTGGTAGTACAT 455100 29 100.0 32 ............................. CTCTGACTCGTCATAATCACCCCATCTGGACG 455161 29 100.0 32 ............................. GCATCAACAAAAGTGATCGGCTATACAGTCAG 455222 29 100.0 32 ............................. AAACTTCCGTGGGAGGAAACGGACGGGCAAGT 455283 29 100.0 32 ............................. TGGATTGCGGAAGATGATGGGGTGCTTAACCC 455344 29 100.0 32 ............................. CTGGACGGGCGCGTGCTGGGTAATTACCCGCT 455405 29 100.0 32 ............................. TGGATTGCGGAAGATGATGGGGTGCTTAACCC 455466 29 100.0 32 ............................. TTGGCTATTTACGACGCGGCACTGGCCCGTTG 455527 29 100.0 32 ............................. TGGGTTGACGGTGCCGTGATTGACGTTGCCGC 455588 29 100.0 32 ............................. GGGCTAAATTTGATAAGTGGGAACCGTCAAGG 455649 29 100.0 32 ............................. CTAAATACGGGCCATAGCGGCAGTATTACCAC 455710 29 100.0 32 ............................. GTATTAATTGACGTGGTGACGATGCGTCGTAA 455771 29 100.0 32 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTG 455832 29 100.0 32 ............................. GCCTCTGTAATTGATTCCAGCGTTATTTGCTC 455893 29 100.0 32 ............................. TCTAATGCTTCAATATCAATCATTATGTTATT 455954 29 100.0 32 ............................. CCCGAACTGATTGATGCCATCAGTCAGGGGGC 456015 29 100.0 32 ............................. TGTGGTGGATCACCGAGTGTAGAAAGCGGCCC 456076 29 100.0 32 ............................. ATGATCGCGCCCTCATCTCCCCAGATTTTTGA 456137 29 100.0 32 ............................. CTGAGGTTGAGCCGCAAAAGATTGTGACTGAT 456198 29 100.0 32 ............................. TAGGCTTCTTTCAGCCTGGCGGCTCGTTTACC 456259 29 100.0 32 ............................. AATGTTGCACTCACCTCTCTCGCCACAAAACC 456320 29 100.0 32 ............................. TAACTCACGTTTGCGAGCTTCCATCTGTGCCG 456381 29 96.6 32 .............T............... CCGCGCTGGGCCAGCCGCATAACGCTGGAAAT 456442 29 96.6 32 .............T............... AAAATGAACTCACCGCCTACAAAGACCAGTTG 456503 29 96.6 32 .............T............... CCAATACGTATACTGACAACAGTATTACTGAC 456564 29 96.6 32 .............T............... TACGCCCCGAACGCGGGGCTGGCTGCTGACCA 456625 29 96.6 32 .............T............... GTAATCCGCGCTTACGATACAATGATGGTCGC 456686 29 96.6 33 .............T............... ACGACGAATGCAGCGCAGACTACTGGCGCTGAC 456748 29 96.6 0 .............T............... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCATTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCGCTATTCCTACCCCCACACCCCGATCC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-16.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 19-719 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATMT010000010.1 Salmonella enterica subsp. enterica serovar Virchow strain 2384 NODE_10_length_161671_cov_56.8421, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 19 29 96.6 32 .............T............... CCGCGCCTTATCGTCGTACATACCCGGCGGTA 80 29 96.6 32 .............T............... AAAATTGTATCATGTTTGGATTGCTGACAGAT 141 29 96.6 32 .............T............... GCTGAGTAGGAACACATATTAACCGGCCCTTC 202 29 96.6 32 .............T............... CGAAAAAACGGGCGCTGCGGGTCATTTTCGAA 263 29 100.0 32 ............................. ATCCGCGCCTTTCCACGCTTAAACGTTACGTA 324 29 100.0 32 ............................. TTGTACTGATCATCTTCCAGCCCGGCAAACGC 385 29 100.0 32 ............................. CGTTCTTCCAGCACATCCTGCGGCTGCACGAC 446 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 507 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 568 29 100.0 32 ............................. CGCTGATATTGTTCGCGCAGATCGTCGTACTG 629 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 690 29 93.1 0 A...........T................ | A [716] ========== ====== ====== ====== ============================= ================================ ================== 12 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCACACCCCGATCCCCCG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAATGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACTGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.88, # 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [6.7-50.0]%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], //