Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913 | 566,173 | 0 | C | G | 37.9% | 64.6 / 93.8 | 66 | pseudogene (204/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
Reads supporting (aligned to +/- strand): ref base C (19/22); new base G (11/14); total (30/36) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.99e-01 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
AAGCGCCGCAATGCAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCACCCACATGCTGTACTGCACC > NC_000913/566038‑566308 | aaGCGCCGCAATGCAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCAtc > 1:373971/1‑139 (MQ=255) gccgcAATGCAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGt > 1:366922/1‑139 (MQ=255) cgcAATGCAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCa > 1:394933/1‑139 (MQ=255) cAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCg < 2:619296/139‑1 (MQ=255) ggttggcgttgttgtAAGGAACCC‑GATATTATCGTTAAGGTGCCTCATCCCCATTTCCCCCCAAAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGcc < 2:606601/130‑1 (MQ=255) ggCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTGGTCAAAACTCGcc < 2:476034/139‑1 (MQ=255) tGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGt < 2:366922/139‑1 (MQ=255) ccGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCg > 2:336983/1‑131 (MQ=255) ccGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCg < 1:336983/131‑1 (MQ=255) tgattgcgcctACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACttt > 2:385819/11‑139 (MQ=255) ttgtGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTc > 1:402798/1‑139 (MQ=255) attgcgcctACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTc > 1:309360/9‑139 (MQ=255) gcgcctACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCAtc < 1:554102/134‑2 (MQ=255) gcctACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCAtccc > 2:121890/4‑136 (MQ=255) aCCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGc > 2:141634/1‑137 (MQ=255) aCCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGc < 1:141634/137‑1 (MQ=255) aCCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTc > 1:199275/1‑139 (MQ=255) cccGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCa > 2:700382/1‑139 (MQ=255) gATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCa < 2:456158/139‑1 (MQ=255) atatTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCAc > 1:318223/1‑139 (MQ=255) atatTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCAGTTTTTCGATGAACTCCGGCACCATCTGGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCAc > 1:434642/1‑139 (MQ=255) tatCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACa < 1:121890/139‑1 (MQ=255) tatCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACa < 2:164407/139‑1 (MQ=255) tatCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACa < 2:373971/139‑1 (MQ=255) atCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAAc > 2:439748/1‑103 (MQ=255) atCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAAc < 1:439748/103‑1 (MQ=255) atCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACAt > 1:408021/1‑139 (MQ=255) atCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACAt > 1:703055/1‑139 (MQ=255) tCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATa > 2:707052/1‑139 (MQ=255) tGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATg > 1:244005/1‑139 (MQ=255) gATGCGTCATCGCCATTGCTCCCC‑TAATACAAAACCAATTTCATCCAGTGCATAGTCCATTTTTTCGATGAACTCCACCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCTCGAAATAATGAAgg > 2:30581/1‑139 (MQ=255) aTGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGc > 1:537251/1‑139 (MQ=255) gCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCt > 2:593701/1‑139 (MQ=255) gCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCt > 2:581159/1‑139 (MQ=255) cGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCtt < 1:385819/139‑1 (MQ=255) cATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATg < 2:499050/122‑1 (MQ=255) cATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATg > 1:499050/1‑122 (MQ=255) cATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCa < 2:309360/139‑1 (MQ=255) tGCTCCCC‑AAACACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATgc < 1:466949/139‑1 (MQ=255) tcTCCCC‑CAATACAACACCAAATTCAGACTGTGGCTTCTCCAGTTTTTCGATGAGCTCCGGGAAAGTCTCCGCCAAAATCGCCATGTACTTTTCAACCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATacg < 2:118808/138‑1 (MQ=255) gCTCCCC‑AGATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATgcg < 2:434642/139‑1 (MQ=255) gCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATgcg < 2:703055/139‑1 (MQ=255) ccc‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCggg < 1:107865/139‑1 (MQ=255) c‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCa > 2:677573/1‑102 (MQ=255) c‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCa < 1:677573/102‑1 (MQ=255) aaTACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCAt < 2:394933/139‑1 (MQ=255) aaaaCCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTg < 1:707052/139‑1 (MQ=255) aaaCCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCGGGTCATAGTTgg > 2:233290/1‑139 (MQ=255) aTTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCCAAACTCg < 2:467656/61‑1 (MQ=255) aTTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCg > 1:467656/1‑61 (MQ=255) aTTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGt < 2:289755/139‑1 (MQ=255) tttCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTa > 2:570413/1‑139 (MQ=255) tCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCGGGTCATAGTTGGCAAAGTAcc < 1:233290/139‑1 (MQ=255) gTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACa < 1:62559/76‑1 (MQ=255) gTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACa > 2:62559/1‑76 (MQ=255) ccATTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCGGGTCATAGTTGGCAAAGTACCAGGCATTTTTTCGCGt < 1:615264/139‑1 (MQ=255) ccATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGt < 2:244005/139‑1 (MQ=255) ccATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGt < 1:570413/139‑1 (MQ=255) aTTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCAtac > 1:334893/1‑95 (MQ=255) aTTTTTTCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCAtac < 2:334893/97‑3 (MQ=255) aTTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCa < 2:402798/139‑1 (MQ=255) tttttCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCAcc > 1:572867/1‑139 (MQ=255) ttttCGATGAACTCCGGCACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCGGGTCATAGTTGGCAAAGTACCAGGCATTTTTTCGCGTCAccc < 1:593701/139‑1 (MQ=255) aaCTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCACCCACATGCTGt < 2:318223/139‑1 (MQ=255) aCTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCACCCACATGCTGTa < 2:346408/139‑1 (MQ=255) cTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCACCCACATGCTGTAc < 1:32884/139‑1 (MQ=255) cACGATCTCGTCAAAACTCGCCATGTACTTTTCATCCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATACGCGGGTCATAGTTGGCAAAGTACCAGGCATTTTTTCGCGTCACCCACATGCTGTACTGCAcc < 1:30581/139‑1 (MQ=255) | AAGCGCCGCAATGCAGGCTTGCCGTGTTGTGAGGTACCCGGATATTATCGTGAGGATGCGTCATCGCCATTGCTCCCC‑AAATACAAAACCAATTTCAGCCAGTGCCTCGTCCATTTTTTCGATGAACTCCGGCACCATCTCGTCAAAACTCGCCATGTACTTTTCATTCCGCTCAATCACGACATAATGCAGGCCTTCACGCTTCATGCGCGGGTCATAGTTGGCAAAGTACCAGGCATCTTTTCGCGTCACCCACATGCTGTACTGCACC > NC_000913/566038‑566308 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |