| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_014034 | 2,185,930 | +C | 89.9% | intergenic (+203/‑302) | mtlK → / → RCAP_rcc02028 | mannitol 2‑dehydrogenase/FeoA family protein |
| Read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_014034 | 2,185,930 | 1 | .→C | 89.9% | 16.9 ‑2.9 ‑0.3 | 69 | intergenic (+203/‑302) | mtlK/RCAP_rcc02028 | mannitol 2‑dehydrogenase/FeoA family protein |
| Reads supporting (aligned to +/- strand): new base (34/28): ref base (1/6): total (35/34) | ||||||||||
| Fisher's exact test strand distribution p-value = 5.48e-02 | ||||||||||
| Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 5.27e-01 | ||||||||||
TGCGGGGGCTCCG.CCCCGCACCCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTGTTTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGCCCGCCGGGTCTC > NC_014034/2185829‑2185988
|
tGCGGGGGCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCg < 2:4204848/101‑1 (MQ=37)
cGGGGGCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.cc < 2:3452597/101‑1 (MQ=37)
gggggCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCCA.ACCG.ccc > 2:1462133/1‑101 (MQ=37)
gCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCctt < 1:1979636/101‑1 (MQ=37)
gCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCctt < 2:3493932/101‑1 (MQ=37)
gCTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCctt < 2:2433821/101‑1 (MQ=37)
cTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCcttt < 2:4077923/101‑2 (MQ=37)
cTCCGCCCCCGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCcttt < 1:1960695/101‑2 (MQ=37)
tccgcccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCctttc > 1:3418966/6‑99 (MQ=37)
tccgcccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCctttc < 2:274819/96‑3 (MQ=37)
cgcccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCAc < 1:3691128/98‑1 (MQ=38)
cgcccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCAc > 1:2831382/4‑101 (MQ=38)
gcccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCCCAAGAAACGCCGA.ACCGCCCCCTTTCAcc > 1:3387795/3‑101 (MQ=38)
cccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCt < 1:3415297/100‑1 (MQ=38)
cccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCt < 2:3250880/100‑1 (MQ=38)
ccccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCtt < 2:3947075/101‑1 (MQ=38)
cccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGGACAAGAAACGCCGA.ACCGCCCCCTTTCCCCTTg > 1:4051642/1‑101 (MQ=255)
cccGCA.CCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTg > 1:3712301/1‑101 (MQ=38)
cccgcgcccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTg < 1:1602509/95‑1 (MQ=38)
cgcacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTGTTTTT.ATGGCACAAAAAAAGCCGA.ACCGCCCCCTTTCACCCTGGc > 2:3666089/5‑101 (MQ=255)
cgcacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGc > 2:3370271/5‑101 (MQ=255)
gcacccccGGCGTATTTATCCCAAGAAAAAGCATCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCt > 1:2030297/4‑101 (MQ=255)
gcacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCt > 1:3013979/4‑101 (MQ=255)
gcacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCt > 1:1829755/4‑101 (MQ=255)
cacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTTCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGTCTc > 1:1387385/3‑101 (MQ=38)
cacccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTc > 1:3602962/3‑101 (MQ=255)
cccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCaa > 1:3731836/1‑101 (MQ=255)
cccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCaa < 1:3957476/101‑1 (MQ=255)
ccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCaaa > 2:1173591/1‑101 (MQ=255)
ccccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCaaa < 1:3370477/101‑1 (MQ=255)
cccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAat < 2:3087042/101‑1 (MQ=255)
cccGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAat < 1:2398340/101‑1 (MQ=255)
cGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAatat < 1:2957452/101‑1 (MQ=255)
ggCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATc > 2:1590716/1‑101 (MQ=255)
ggCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATc > 2:1579731/1‑101 (MQ=255)
ggCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATc < 2:1314124/101‑1 (MQ=255)
gCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATcc > 1:4748640/1‑101 (MQ=255)
cGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATccc < 2:546385/101‑1 (MQ=255)
cGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATccc < 1:3319079/101‑1 (MQ=255)
gTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCg < 2:4506427/101‑1 (MQ=255)
gTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCg > 1:942191/1‑101 (MQ=255)
gTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCg > 1:420665/1‑101 (MQ=255)
tATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCgg > 2:3443214/1‑101 (MQ=255)
tATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCgg > 2:638831/1‑101 (MQ=255)
aTTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCggg < 2:2484188/101‑1 (MQ=255)
aTTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCggg > 2:255395/1‑101 (MQ=255)
aTTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCggg < 1:1579831/101‑1 (MQ=255)
ctATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCggggg < 2:1526171/100‑1 (MQ=39)
tATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGt > 1:4350656/1‑101 (MQ=255)
tATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGt > 1:3030817/1‑101 (MQ=255)
tATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGt > 1:2390317/1‑101 (MQ=255)
aTCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCCCCTTGGCTCAAATATCCCggggggg > 1:1526272/1‑99 (MQ=255)
aTCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTc < 1:3817493/101‑1 (MQ=255)
tCCCAAGAAAAAGCATCGGCATGCCCCGAAGGGCTTGTTTTT.ATGGGACAAGAAAAGCCAA.ACAGCCCCCCCTCACCTTGGCTCAAATATCCCGGGGGTcc > 2:330770/1‑101 (MQ=19)
tCCCAAGAAAAAGCAGCGGCTTTCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCGGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTcc < 2:3679886/101‑1 (MQ=38)
tCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTcc < 2:2831217/101‑1 (MQ=255)
tCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTcc > 1:355939/1‑101 (MQ=255)
tCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTcc < 2:3598873/101‑1 (MQ=255)
cccAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCg > 2:2994983/1‑101 (MQ=255)
aaGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCgggg < 1:2465401/101‑1 (MQ=255)
aaGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCgggg < 2:3395402/101‑1 (MQ=255)
aaGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCgggg > 1:199110/1‑101 (MQ=255)
aaaaaGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCg > 2:2921070/1‑101 (MQ=255)
aaaaaGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGGCCGGGGGCg > 2:124648/1‑101 (MQ=38)
aaaaGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCgg > 2:4312070/1‑101 (MQ=255)
aaaGCAGCGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCggc > 2:2003376/1‑100 (MQ=38)
agcGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccc < 1:664908/101‑2 (MQ=37)
agcGGCTTGCCCCGAAAGACTTG.TTTTGATGGCACAAGAAATACCCA.AACGCCCCCTTTCACCTTTGCTCAAAAATGCCGGGGGGACGGGGGCGGAgggcc > 2:1992097/1‑97 (MQ=255)
tcGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGccccc < 2:2030180/100‑3 (MQ=37)
gcGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGccccc < 1:4261302/101‑3 (MQ=37)
cgtcgtGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccccg < 2:706048/96‑4 (MQ=25)
cGGCTTGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccccg < 1:3912014/101‑4 (MQ=37)
ttGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccccggcgg > 1:4522225/1‑94 (MQ=25)
tGCCCCGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccccggcggg > 1:2443020/1‑93 (MQ=21)
cccccGAATGCCTTG.TTTTGATGGCACAAGAAACCCCGACCCCC.CCCCTTTCCCCTGGGCTAAAATTCCCGGGGGGTCGGGGGGCGGAGcccccggcgggt < 2:3418760/100‑10 (MQ=12)
ccccGAAGGCCTTG.TTTTGATGGCACAAGAAACGCCGA.ACCGCCCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGcccccggcggggg > 2:1550205/1‑91 (MQ=21)
|
TGCGGGGGCTCCG.CCCCGCACCCCCCGGCGTATTTATCCCAAGAAAAAGCAGCGGCTTGCCCCGAAGGCCTTGTTTTTGATGGCACAAGAAACGCCGA.ACCG.CCCCTTTCACCTTGGCTCAAATATCCCGGGGGTCCGGGGGCGGAGCCCGCCGGGTCTC > NC_014034/2185829‑2185988
Base quality scores:
ATCG
< 3 ≤
ATCG
< 19 ≤
ATCG
< 28 ≤
ATCG
< 34 ≤
ATCG
< 40 ≤
ATCG
|