| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | BS168_reference_genome | 1,317,152 | +GT | intergenic (+23/+5) | phrA → / ← yjpA | secreted inhibitor of the activity of phosphatase RapA (quorum sensing)/putative enzyme |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BS168_reference_genome | 1,317,152 | 1 | . | G | 94.8% | 208.0 / 4.2 | 59 | intergenic (+23/+5) | phrA/yjpA | secreted inhibitor of the activity of phosphatase RapA (quorum sensing)/putative enzyme |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base G (35/20); total (36/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.51e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 | |||||||||||
| * | BS168_reference_genome | 1,317,152 | 2 | . | T | 93.2% | 183.0 / 5.2 | 59 | intergenic (+23/+5) | phrA/yjpA | secreted inhibitor of the activity of phosphatase RapA (quorum sensing)/putative enzyme |
| Reads supporting (aligned to +/- strand): ref base . (1/3); new base T (35/20); total (36/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.89e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.54e-01 | |||||||||||
CTCGTTGCGGTCGGGTTCAGCTTTACTCAGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GG‑‑C‑‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGATGACATAC > BS168_reference_genome/1317025‑1317271 || cTCGTTGCGGTCGGGTTCAGCTTTACTCAGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GG‑‑G‑‑‑tcttttt < 3:162857/136‑3 (MQ=255) ggTCGGGTTCAGCTTTACTCAGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GG‑‑G‑‑‑TCttttttatttat > 7:335171/1‑129 (MQ=255) cAGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATc > 1:372854/1‑136 (MQ=255) aGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATATCATATTGCGGCACGCAATCAAACATGATGCATAAAAAACGACCCTTAGCGGT‑CT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTAt < 3:184104/134‑1 (MQ=255) aGGTGATGGGTCATGCAGGTGAAACAGCAAACACAGAATGGAATACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACACTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTAt < 4:313620/134‑1 (MQ=255) aTGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAg < 8:13265/135‑1 (MQ=255) aTGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAg < 5:26779/135‑1 (MQ=255) aTGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGc > 3:154331/1‑136 (MQ=255) aTGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGc > 7:312804/1‑136 (MQ=255) gTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTc < 4:154331/135‑1 (MQ=255) gTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCa > 8:383597/1‑136 (MQ=255) tCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCag > 5:249535/1‑135 (MQ=255) cAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATc > 4:219856/1‑136 (MQ=255) cAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATc > 4:202317/1‑136 (MQ=255) aGGTGAAACAGCAAACACAGAAGGGAAAACATATCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATcc < 4:298810/136‑1 (MQ=255) aaaCAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAg < 1:69033/119‑1 (MQ=255) aaaCAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAg > 2:69033/1‑119 (MQ=255) aaaCAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTg > 6:154636/1‑136 (MQ=255) aGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGccac < 7:65532/136‑1 (MQ=255) gCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGt > 3:246919/1‑111 (MQ=255) gCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGt < 4:246919/111‑1 (MQ=255) gCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGccac > 4:332491/1‑135 (MQ=255) gCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGccac > 8:338127/1‑135 (MQ=255) cacaGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCgg > 4:245181/1‑136 (MQ=255) cacaGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCgg > 2:357922/1‑136 (MQ=255) cacaGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCg > 8:316363/1‑135 (MQ=255) cacaGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCg > 1:114156/1‑135 (MQ=255) caGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCATTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCTCCAGCGGAt < 4:150154/136‑1 (MQ=255) gggAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCa > 5:324981/1‑136 (MQ=255) tttCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGAtt > 3:263970/1‑136 (MQ=255) tCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTc > 6:6094/1‑136 (MQ=255) tCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTc > 7:103617/1‑136 (MQ=255) atatTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTcc < 7:383597/135‑1 (MQ=255) tatTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTTTTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGAGCCGCATGGCCGAgttaggc > 7:359404/1‑132 (MQ=255) tatTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGc > 7:14092/1‑136 (MQ=255) cGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGcc < 5:380441/135‑1 (MQ=255) cGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGcc < 5:6094/135‑1 (MQ=255) ggCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCtt < 7:412023/64‑1 (MQ=255) ggCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCtt > 8:412023/1‑64 (MQ=255) aCGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTc < 3:245181/136‑1 (MQ=255) aaTCAAACATGATGCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCCCTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGGCTCTTCCAGt > 5:115268/1‑136 (MQ=255) tgatgCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCt < 6:280615/136‑1 (MQ=255) tgatgCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCt < 4:263970/136‑1 (MQ=255) tgatgCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCt < 7:338127/136‑1 (MQ=255) atgCATAAAAAAAGACCCGTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCt < 2:325953/134‑1 (MQ=255) gCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGCTCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCGTCGa > 4:45372/1‑136 (MQ=255) gCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCCTGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTc > 4:45373/1‑134 (MQ=255) gCATAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGa > 7:169682/1‑136 (MQ=255) ctacaaacaGACCCTTAG‑GG‑‑CTCTTTTTTATTTCTTCAGCGTCCATTCTTGTATCGACCGCACAGAAGATCCACTTGCCACCAGCGGAGCCGCAGGGCCGATTTCCGCGGCCGCTTCCAGTGAATCTGCTTCGATg < 7:331404/132‑1 (MQ=255) aTAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGCAGATCCCCTTGCCCCCAGCGGATCCGCATGGCCGATTTCCGCGGCCTCTTCCAGTGAATCGGCGTCGCTg > 6:53386/1‑136 (MQ=255) aTAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGGTTTCCGCGGCCGGGTGCAGGGTATCTGCGTCGATg > 3:232980/1‑136 (MQ=255) aTAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGAt > 8:71893/1‑135 (MQ=255) aTAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGAt > 5:278/1‑135 (MQ=255) aTAAAAAAAGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGAt > 1:82127/1‑135 (MQ=255) aaaaaGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGcc > 4:17297/1‑108 (MQ=255) aaaaaGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGcc < 3:17297/108‑1 (MQ=255) aaaaaGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGATGACa > 5:85814/1‑135 (MQ=255) aaaaaGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGATGACa > 5:134946/1‑135 (MQ=255) aaaGACCCTTAG‑GGGTCT‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGATGACATAc < 6:324981/136‑1 (MQ=255) || CTCGTTGCGGTCGGGTTCAGCTTTACTCAGGTGATGGTTCATGCAGGTGAAACAGCAAACACAGAAGGGAAAACATTTCATATTGCGGCACGCAATCAAACATGATGCATAAAAAAAGACCCTTAG‑GG‑‑C‑‑‑TTTTTATTTCTTCAGCTTCCATTCTTTTATCGTCAGCTCAGAAGATCCACTTGCCACCAGCGGATCCGCATGGCCGATTTCCGCTGCCTCTTCCAGTGAATCTGCTTCGATGACATAC > BS168_reference_genome/1317025‑1317271 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |