Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_014034 | 2,330,176 | C→G | 23.1% | intergenic (+151/+161) | RCAP_rcc02161 → / ← mrcA | hypothetical protein/penicillin‑binding protein 1A |
Read alignment evidence... | ||||||||||
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seq id | position | change | freq | score | reads | annotation | genes | product | ||
* | NC_014034 | 2,330,176 | 0 | C→G | 23.1% | 26.4 ‑2.3 ‑1.4 | 52 | intergenic (+151/+161) | RCAP_rcc02161/mrcA | hypothetical protein/penicillin‑binding protein 1A |
Reads supporting (aligned to +/- strand): new base (5/7): ref base (6/34): total (11/41) | ||||||||||
Fisher's exact test strand distribution p-value = 9.99e-02 | ||||||||||
Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 4.06e-02 |
CTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCG > NC_014034/2330078‑2330245
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cTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggg > 1:4684641/1‑101 (MQ=255)
ttGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Gggg > 1:4153193/1‑100 (MQ=255)
ttGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Gggg > 2:4047545/1‑100 (MQ=255)
tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggg > 1:1180639/1‑99 (MQ=255)
tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggc > 1:564971/1‑99 (MQ=255)
tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggc < 1:21854/101‑3 (MQ=255)
ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGGTCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggctcc < 1:771653/101‑6 (MQ=255)
ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggctcc < 1:1201483/101‑6 (MQ=255)
ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggctcc < 1:4081553/101‑6 (MQ=255)
ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggctcc < 2:572004/101‑6 (MQ=255)
ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......Ggggctcc < 2:3711830/101‑6 (MQ=255)
ccGCCAAGGGGGCCAACGGCGCGCAGAGCGCCGCGCGGATCGGCCGATGGCGGAGAGGAATTTCGCCTCGCAGGCGCGGCGACCGGGGC....G.......Ggggctccgcc < 2:4550536/101‑9 (MQ=37)
agagCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTgcgc < 1:480302/101‑1 (MQ=18)
agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa < 1:3967207/101‑1 (MQ=18)
agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa < 1:4254724/101‑1 (MQ=18)
agCGCCGCACGGATCGGCCGATGGCAGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa < 1:2130277/101‑1 (MQ=18)
ccgcACGGATCGGCGGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa < 2:3321482/101‑1 (MQ=17)
ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa < 1:3040680/101‑1 (MQ=18)
ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa < 2:1105057/101‑1 (MQ=18)
cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGGTCCGC.......CCCCGCACCCCCCGCGTATTTTCGCCCAGaaa > 2:801357/1‑101 (MQ=16)
cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCTCCCCCGGCGTATTTGCGCCAAGaaa < 2:4917797/101‑1 (MQ=18)
cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaa < 1:4583735/101‑1 (MQ=18)
gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa < 2:1962021/101‑1 (MQ=18)
gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa < 2:2489664/101‑1 (MQ=18)
gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa < 2:4323755/101‑1 (MQ=18)
cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaaa < 1:4154572/101‑1 (MQ=17)
cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCCCCCCCCCGGCGTATTTTCGCCAAGaaaaa > 2:4553042/1‑101 (MQ=16)
tccgCCGAAGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCTCCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg < 1:3197574/98‑1 (MQ=12)
tCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg < 1:2464376/101‑1 (MQ=18)
tCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg > 1:1885418/1‑101 (MQ=17)
cGGCCGATGGCGGAGAGAAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgggg < 2:4653288/101‑1 (MQ=17)
gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGCTGGGGCTC....CGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcg > 1:1365836/1‑101 (MQ=17)
gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgggggg > 2:780250/1‑99 (MQ=17)
gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcg < 2:3213737/101‑1 (MQ=17)
gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTAATTGCGCCCAGAAAAAACCGGGgcg > 1:4682897/1‑101 (MQ=9)
ccGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgc < 2:805713/101‑1 (MQ=17)
ccGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGGATTTTCGCCCAGAAAAAGCCGGGgcgc > 1:3129840/1‑101 (MQ=12)
cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcg < 2:3404209/101‑1 (MQ=17)
cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......GGGGCTCCCCCCCCGCACCCCCCGCGGATTTGCGCCCAGAAAAAGACCGGgcgcg > 2:1677858/1‑101 (MQ=12)
gATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcgc < 2:4327611/101‑1 (MQ=17)
aTGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGG....GGGGGCTCCGC.......CCCCCCCCCCCCCGCGTCTTTGCGCCCAGAAAAAACCGGGGCGGGCa > 2:345062/1‑101 (MQ=9)
tGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCAt < 1:1143659/101‑1 (MQ=17)
ggCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg < 2:3023837/101‑1 (MQ=17)
gCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGc < 1:3887182/101‑1 (MQ=18)
gagaGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCggg < 1:1482087/101‑1 (MQ=18)
agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg < 2:2058113/101‑1 (MQ=18)
agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg < 2:3095750/101‑1 (MQ=18)
gagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGc > 1:4025121/1‑101 (MQ=17)
agGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcc < 2:4964389/101‑1 (MQ=17)
aTTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCgg < 1:25900/101‑1 (MQ=17)
tttCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGa < 1:3365170/101‑1 (MQ=17)
ttCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGAt < 2:4501526/101‑1 (MQ=17)
gccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc < 1:801459/101‑1 (MQ=18)
gccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc < 2:3783694/101‑1 (MQ=18)
ccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAcc < 1:1504161/101‑1 (MQ=18)
cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg < 1:3569662/101‑1 (MQ=18)
cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg < 1:2044245/101‑1 (MQ=18)
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CTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCG > NC_014034/2330078‑2330245
Base quality scores: 
ATCG
< 3 ≤
ATCG
< 18 ≤
ATCG
< 26 ≤
ATCG
< 33 ≤
ATCG
< 40 ≤
ATCG
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