| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,544,494 | C→G | 17.3% | intergenic (+53/+61) | mdfA → / ← ampG | multidrug MFS transporter/muropeptide permease AmpG |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,544,494 | 0 | C | G | 17.3% | 86.0 / 12.2 | 40 | intergenic (+53/+61) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| Reads supporting (aligned to +/- strand): ref base C (13/20); new base G (4/3); total (17/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.32e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.26e-01 | |||||||||||
CCTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCA > NC_002947/1544351‑1544640 | ccTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CAAAGCggcg‑cgg > 3:296820/1‑148 (MQ=255) gggggggggCGGGGGGGTTGGCGCGGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCACTCCTA‑CACAGGGCCG‑CGCCGCTTTGt < 2:113784/148‑1 (MQ=255) gggTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAg > 5:111745/1‑148 (MQ=255) ggggggggCGGGGGGGCTGTGGCCGCGGTGGGTTGGGGGGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCg < 6:275365/146‑1 (MQ=17) ggggggggGTGGGCGCGGGGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCgg < 4:296820/147‑1 (MQ=21) cGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCggg < 6:111745/149‑1 (MQ=255) cGGGGGCGCTGGCGCTGTGGCCGCGGGGGGTTGGGGTGGGGGGGCGGCCGGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCggg < 4:256655/149‑1 (MQ=17) gggggCGTTGGCGCTGTGGCCGCTGTGGTTAGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTTAAACCCCTCCGA‑AACAGGGCCG‑CGCCGCGTTTTAGGAgacggt > 1:226627/1‑144 (MQ=255) ggCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCAGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAAACCCCGCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCcgc > 2:82116/1‑148 (MQ=255) cTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCCCTCCTA‑AACAGGGCCC‑CGCCGCATTTTAGGAGCGGGGTTA‑CCcgcgca > 6:368757/1‑145 (MQ=39) gCCGCTGGGGTTTGTGGGGGGGGGGCGGCCTGGGGAAGGGGCGGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCa < 3:217007/149‑1 (MQ=255) tgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGt > 6:116603/1‑100 (MQ=255) tgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGt < 5:116603/100‑1 (MQ=255) gatccccTGGGCAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAg < 5:341972/144‑1 (MQ=255) gggcCTGGGGATGGGGCTTTCGCTCTATATTCGTTTTTGCCGGGGCGGGCCTCTTCGCGGTTAACCCCGCTCCTA‑CACCGGGCCG‑CGCCGTTTTTTCGTAGGGGGTTAA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAggg < 8:53405/148‑1 (MQ=255) cTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTATTAGCGGGTTAAACCCCGGCGA‑AACCGGGCCC‑CGCCGCGTTTTAGGAGCGGGGTTT‑ACCGCGAAGAGGGCCGCCCAGGGAATAAAAATC‑‑GTGAgggga > 6:341972/1‑145 (MQ=255) gggAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTTAAACCCCTCCGA‑CACACGGCCC‑CGCCGCGTTGTAGGAGCGGGGTTA‑ACCGCGCAGAGGCCCGCACAGGCAATACAAAGC‑‑TTCAGGGCCGcgcc > 2:51575/1‑146 (MQ=255) gggAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGc < 5:389123/115‑1 (MQ=255) aGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGcc < 6:383073/148‑1 (MQ=255) ggCGGTAGCTCGATACTCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CCCAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCg < 5:343388/149‑1 (MQ=255) cTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGc < 7:158895/136‑1 (MQ=255) gATAATCGGTATTGCCGGGGCCGGCGTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTcc < 2:226627/149‑1 (MQ=255) gATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTcc < 1:51575/149‑1 (MQ=255) ggggCCGGCCTCTGCGCGGGAAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGGGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTccccc < 3:363946/149‑1 (MQ=255) ccggccTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAg > 6:356738/1‑96 (MQ=255) ccggccTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAg < 5:356738/96‑1 (MQ=255) ggccCCGTCCCGGGTAAACCCGCCCCAACCCCCGGCCCG‑CCCGGCTTTGTGGGCG‑GGGTTTACCCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCcccgcccg < 3:2356/149‑1 (MQ=255) tctTCGCGGGTAAACCCGCTCCTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCTCCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTc > 5:307322/1‑149 (MQ=21) ttCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCt > 3:102581/1‑149 (MQ=255) gcgGGAAATCCCGCTCCTA‑CAGTGGGCCG‑CGCCGCTTTGTTGGAGGGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCGGCCCGGCTTCCTGAt < 5:328900/149‑1 (MQ=38) cggggTAAACCCGGCCCAA‑CCCCGGGCCGCCGCGGGTTTTTAGCGGGGGTTTAA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGa < 1:343529/147‑1 (MQ=255) gggTTAACCCTCTCCTT‑CCCAGGGCCG‑CGCGGCTTTTTAGGTGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTTTCTGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGAt < 1:298512/149‑1 (MQ=37) gTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCa > 2:290345/1‑149 (MQ=255) cccGCTCCTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCGGCCCCGGCAATACGAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTg > 2:166311/1‑147 (MQ=21) cTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTc > 2:158676/1‑128 (MQ=25) cTA‑CAAAGCGGCG‑CGGCCCTGTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGACGACCGCCACCGGCGTccccc > 2:146497/1‑118 (MQ=21) cacaGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatc < 1:290345/147‑1 (MQ=255) cacaGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatc < 1:82116/147‑1 (MQ=255) acaGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcag > 3:147636/1‑148 (MQ=255) aGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcagga > 6:52130/1‑148 (MQ=255) gtccg‑cgacgcTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcaggat > 2:276791/3‑147 (MQ=255) ggCCG‑CGCCGCATTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcaggatca > 6:136131/1‑149 (MQ=255) | CCTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTA‑CACAGGGCCG‑CGCCGCTTTGTAGGAGCGGGTTTA‑CCCGCGAAGAGGCCAGCACAGGCAATACAAAGC‑‑TTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCA > NC_002947/1544351‑1544640 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |