| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 468,093 | Δ1 bp | coding (40/339 nt) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 468,092 | 0 | G | . | 97.3% | 159.3 / ‑2.3 | 37 | coding (39/339 nt) | glnK | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base . (15/21); minor base T (1/0); total (16/21) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.32e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 | |||||||||||
TTCTTAACTTCCTGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGC > CP009273/467949‑468222 | ttcttAACTTCCTGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGAc < 1:249233/149‑1 (MQ=255) ccTGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAg < 1:424908/149‑1 (MQ=255) cTGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCg < 2:575854/143‑1 (MQ=255) tGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACggtggt > 2:475973/1‑138 (MQ=255) ctcGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCCCGCT‑GAAGACGTCCGTGAAGCGTTAt < 2:412354/143‑1 (MQ=255) ctcGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCa < 1:331218/149‑1 (MQ=255) cGTTTTTCATTTTTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCAtt < 1:6190/149‑1 (MQ=255) cGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCGTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCAtt < 1:67346/149‑1 (MQ=255) gTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCCTTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGGTAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCtt > 2:287866/1‑143 (MQ=255) gTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTg < 1:543056/149‑1 (MQ=255) ttCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGCACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCAt < 2:541894/143‑1 (MQ=255) tCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCAtt < 2:471561/143‑1 (MQ=255) gCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATATATGAAGCTGGTGACCGTGGTAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTGATCTTCCCTTGGTATTCAg > 2:343070/1‑143 (MQ=255) cGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTc < 1:276161/149‑1 (MQ=255) gCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGGGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAATCGTTATCTTCCATTGGTATTCAGGGCCTGa < 2:690582/143‑1 (MQ=255) cAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATCCAGGGCCTGACCGGCACCGaa > 1:763218/1‑149 (MQ=255) tACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTg > 1:729209/1‑149 (MQ=255) aCCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAAACGTTCGTGAAGCGGTATCTTCCATTGAGATTCAGGGCCTGACGGTCGCCg > 2:262915/1‑143 (MQ=255) cttcGTGTAGCAGAACCATTACCGAATTCTTACCGGGGGGGATCTATGAAGCTGGTGACCGTGATAATCGAAGCATTCAAGCT‑GAAGCCGTTCTTGAAGCGTTATTTTCCGTTGGTATTCAGGGCCTGACCGCCCCCGAAGTGAAAGGt > 1:64160/1‑149 (MQ=255) ttcGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGtt > 1:552194/1‑149 (MQ=255) caaGCAGAACCATTACGGAATTTTGACCGCAGGGGATCTATGAAGCTTGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGt < 2:38778/141‑1 (MQ=255) gCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGt > 1:406595/1‑149 (MQ=255) aGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCTTGATAATCAAACCGTTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCgg > 2:463782/1‑143 (MQ=255) cGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAG‑TTGAAGACGTTCGTGAAGCGTTATCTTCCACTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAg > 2:523890/1‑143 (MQ=255) gAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAgg < 2:701480/143‑1 (MQ=255) ccGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGAGTCAGAAAGGGCATGCGGa > 2:407200/1‑143 (MQ=255) tgAGGCGATCTATGGCGCTGGTGCCCGTGATGATCAAACCAGTCAAGCT‑GAAGACGTGCGTGAAGCGTTATCTTCCATTTGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGACAGGGCATGCCGAGc < 2:2008/142‑1 (MQ=255) gtgggATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCgg < 1:535000/147‑1 (MQ=255) gggATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCGTTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCgggg > 1:268360/1‑149 (MQ=255) gATCTATGAAGCTTGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTAcc < 2:371621/143‑1 (MQ=255) cTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCggg < 2:492186/143‑1 (MQ=255) gACCCTGATAATCAACCCATTCAAGCT‑GAAGACGTCCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGCAACCGAAAAGTAAGGTTTCGGGAGGAACAGAGGGCACGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCaa < 1:188592/149‑1 (MQ=255) aCCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCAGTGGTATTCAGGGCCTGACCGTCACGGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGc > 2:59429/1‑143 (MQ=255) cGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGt > 2:232703/1‑143 (MQ=255) tGATAATCAAACCATTCCAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTcc < 1:391367/149‑1 (MQ=255) gATCATCAATTCATTCAAGCT‑GAAGACGTTCGGGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGACAGGTTTCGGGCGTCAGAAAGGGCATGCGGATCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCt < 1:158896/149‑1 (MQ=255) aaCCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGc > 2:452272/1‑143 (MQ=255) | TTCTTAACTTCCTGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGC > CP009273/467949‑468222 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |