Array 1 478171-479297 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFDUP010000072.1 Salmonella enterica subsp. enterica serovar Brunei strain L-H5-Feb NODE_86_length_663822_cov_74.151360, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 478171 29 100.0 32 ............................. CCCGCGCACCTGGCATCGTTCACGTTGAACAG 478232 29 100.0 32 ............................. CCTTCTTTCGTATGCACGAACACCCATTTATG 478293 29 100.0 32 ............................. GTCACGAACGAACCAGGCAATCATCGCGCACA 478354 29 100.0 32 ............................. CCGGTTTGATAATTATAAATCAATTGGCAGGA 478415 29 100.0 32 ............................. TTTTACACACTGGCGGAGGGCGCATCATATCC 478476 29 100.0 33 ............................. CGCGTAAGCATCCCGTCCCGGTTAAAATCAGGC 478538 29 100.0 32 ............................. GCGCAACAGCGGATATAGATTCAACAGCGCTC 478599 29 96.6 32 ............................C GGCCATGCTCGCGGGGGTATACTCCCGCGATC 478660 29 100.0 32 ............................. ATCCCGCGCCACGTCATTCCGCCGCCCTGAAA 478721 29 100.0 32 ............................. CGTAATCAATTTTTAGCGACAGGAGACGCTAT 478782 29 100.0 32 ............................. AAACGCACTCGCTACGATGAGTACCTTGATTC 478843 29 100.0 32 ............................. TAGACCGTATCACAATATCTGGTATTGGATAC 478904 29 100.0 32 ............................. GAATCCCGATTCTCGGTGTTGGCGCCATCTAT 478965 29 100.0 32 ............................. GATGATGAGTGGTATCGCAGGGAATGCGAGAA 479026 29 100.0 32 ............................. CTCATCCCACGATAAAAACCGTTCACCTACCG 479087 29 96.6 32 .C........................... GACGTTACCCCATACATGATCCGGGGAGTTCT 479148 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 479209 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 479270 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 19 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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 : 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%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 488530-490206 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFDUP010000072.1 Salmonella enterica subsp. enterica serovar Brunei strain L-H5-Feb NODE_86_length_663822_cov_74.151360, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 488530 29 100.0 32 ............................. CCGGTAAATCCGGCTTTTTTTGTGCCTTCGCC 488591 29 100.0 32 ............................. GGTCCGAATACGCATTGAGAACAATATAGAGC 488652 29 100.0 32 ............................. AGATGAATATGTCTCAGTCCCAGCTGGCAACA 488713 29 100.0 32 ............................. AGAAATCAGGTCGAGTGAGTACGAACCTTATT 488774 29 100.0 32 ............................. TCACACGTTAGATCAACAGTTGTGGCCGTATT 488835 29 100.0 32 ............................. CGTAGAGGGATATTCCACAGGCGAACGCACAA 488896 29 100.0 32 ............................. GCGAGTAACAAAGGTTGAAATGTGCTCATGAT 488957 29 96.6 32 ............T................ TCGCTTGCGCTCCGAATGGGGCGCACACTTTC 489018 29 100.0 32 ............................. TTCGTTCTAAACAGAGATGGTTGGTTAGATAT 489079 29 100.0 32 ............................. AAACCGTTAGACGTGGTATAGCCAGGGTTTGC 489140 29 100.0 32 ............................. CAAGGTTTCTGAAAATGAGCGCGTTTCCGTTC 489201 29 100.0 32 ............................. TTTATTCGCCGAAAGAGGGCGACATAGTTATT 489262 29 100.0 32 ............................. AGCCAGGCGTTATCTTCTGGCGTTCTTAGCGG 489323 29 100.0 32 ............................. GGGGAGGGTGAATTTAACGAGCTGTATAAAGC 489384 29 100.0 32 ............................. CCGCAACTAAGTTCTATGTGGATAGTACAGTT 489445 29 100.0 32 ............................. CGAATTTAAGAGTCGCATCTGTATTTAATGGT 489506 29 100.0 32 ............................. AATAGCACGCCTGCCGTTGTTTCCCGCGTCTT 489567 29 100.0 32 ............................. GGAGCACGGTAAACTACTGGCGCAAGGGCCGC 489628 29 100.0 32 ............................. CACCCCCTCGATCCATAACCCCCTTTGTATCC 489689 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 489750 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 489811 29 100.0 32 ............................. CCAAAAGAATTCTCAGCATATCTTTAAGTATT 489872 29 100.0 32 ............................. CCAACAGACAACCAATGCGCAGGGGTAAGGCG 489933 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 489994 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 490055 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 490116 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 490177 29 89.7 0 A........T..T................ | A [490203] ========== ====== ====== ====== ============================= ================================ ================== 28 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGCTGTATCAGCCGGACTCCCGTCCCAGCCTTATTCTGGCGCATAGCGCGCGTCGCTTAATGGATCGTTTCAATCAGTCAATATGGTCGGTCACTCTTTCTGGTACGGAAGAACCCGATGAAGCGCAGCCTTATAGTCAGGGATGCGTCGCCTGGTTTGCCGACAGCAATAAAAAAGCGTTGTTGGCGGAGGTTGGCGTAGGCACGTTGGATCAGGCGATGATGGCGGTAATGCCATTTAAACATAACAACCTGCGGTTACTGGGTCTTAGCAACAAGATTTTACTGGCGGATGAGATCCATGCCTGTGATGCCTGGATGTCCCGAATACTTGAAGGTTTGATCGAACGGCAGGCCAGTAATGGCAACGCCACTATTCTGTTATCTGCGACGCTATCGCAGCAGCAGCGAGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: NA [40.0-48.3]%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], //