| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_014034 | 2,330,295 | +A | 84.4% | intergenic (+270/+42) | RCAP_rcc02161 → / ← mrcA | hypothetical protein/penicillin‑binding protein 1A |
| Read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_014034 | 2,330,295 | 4 | .→A | 84.4% | 11.1 ‑4.0 ‑0.2 | 32 | intergenic (+270/+42) | RCAP_rcc02161/mrcA | hypothetical protein/penicillin‑binding protein 1A |
| Reads supporting (aligned to +/- strand): new base (16/10): ref base (0/5): total (16/16) | ||||||||||
| Fisher's exact test strand distribution p-value = 1.77e-02 | ||||||||||
| Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 5.82e-01 | ||||||||||
TATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCG > NC_014034/2330195‑2330383
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tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g > 2:2523131/1‑101 (MQ=255)
agtgggtcAAGAAAAAGCCGGGGCCCGCATGCGGGGCCCCGGATCACCGCCGGCCCGGGCGGCCTTCACCTGGGGCCCAAGAtcccgggggtccgggg..gcg > 2:3828701/8‑99 (MQ=255)
tGCGCCAAGAAAANGCNGGGGCGCNCNNNNNGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgga < 1:590716/101‑5 (MQ=38)
ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagccc > 1:2137467/1‑93 (MQ=255)
cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagcccc > 2:3976145/1‑92 (MQ=38)
aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGAGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G.....cggagccccc < 1:4136423/101‑10 (MQ=37)
aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G.....cggagcccccg < 1:2426598/101‑11 (MQ=38)
ggCGCGCAGGCGGGGCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGa < 1:3371816/101‑1 (MQ=18)
gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCCCGGCAt > 1:2255344/1‑101 (MQ=21)
aTGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGccacc > 2:2723659/1‑97 (MQ=21)
gggggCCCCGGCCCCCGGGCGGCCCGGGCGGC.TCCCCCGGGGGGCAAAAGCCCCGGGGGGCGGGGG..G....GCGGCCCCCCCGGCGGGTCGCCGAGGCATCGCCt < 2:1905488/100‑1 (MQ=255)
ggggCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCCCCGGGGGCCAAAGATCCGGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTc < 1:2632290/101‑1 (MQ=18)
ggggCCCCGGATCACCGGCGGCCGGGGCGGCTTTCCCCGGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTc < 1:1361394/101‑1 (MQ=18)
ggggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGCACCGcccc > 1:824036/1‑99 (MQ=18)
gggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGGGGCAGCGccccc > 2:3098302/1‑98 (MQ=18)
gggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGCGACGCCCCg > 1:2811404/1‑101 (MQ=18)
gCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGGCCCGCCTCggg > 2:1370207/1‑100 (MQ=16)
ccccGGACCCCGGGCGGCCGGGGCGGCTTTCGCCGGGGGCCAAAGACCCGGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCg < 1:202039/101‑1 (MQ=12)
aTCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGCCTCGCCCCGGCGGAAAcc > 2:3536347/1‑101 (MQ=12)
cggcCCGGGGGGCTTGCACGTGGGGCCAAGGTGCCGGGGGGTCGGGGG..GCGGAG.....CCCCGGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTaa < 1:4313617/101‑1 (MQ=255)
gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGCCGAGGCATCGCCCCGGGGAAAAccccttttaaaa > 2:4086862/1‑92 (MQ=12)
cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAcc < 1:4092047/101‑1 (MQ=25)
cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGCCCGGGGATCGCCCCGGCGACAAACCTTATTaaaaaac > 2:68326/1‑97 (MQ=9)
cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGGAGCGCCCCGGGGGAAACCCTTAGTaaaaaac > 1:3467715/1‑97 (MQ=9)
gggCGGCTTTCCCCTGGGGCCAAAGACCCCGGGGGTCCGGGGGCG....GAC...CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccg < 1:3098546/101‑1 (MQ=21)
gggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGGCGAGGCGTCGCCTCCGCGGCATCCCCTTGGAAAAAccg > 1:1609374/1‑101 (MQ=9)
ggcggcTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgc < 2:2971730/101‑1 (MQ=21)
cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGAGGCGGCGCCCCCGCGGAAACCCCTCGTACAAAccgccc > 1:1623131/1‑101 (MQ=9)
gtcTTTCGCCGGGGGCCAAAGACCCGGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccg < 2:2799186/99‑1 (MQ=16)
gtcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccg < 2:4542101/99‑1 (MQ=21)
gcTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCG....GCC...CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccgc < 1:3843164/101‑1 (MQ=25)
tttCACCTGGGGCCAAAGATCCCGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCgg < 1:3074994/101‑1 (MQ=21)
tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGGAACGCCCCGGCGAAAACCCCTTGTAAAAAACCNCCNCgg > 1:737228/1‑101 (MQ=9)
ttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCCGGGGAACGCCTCGGCGAAAACCCCTTGTAAAAACCACCCCCGGa > 2:1469658/1‑101 (MQ=2)
cTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAggg < 2:3498500/101‑1 (MQ=21)
ccAAAGATCCGGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGa < 2:2870567/101‑1 (MQ=21)
ccAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGa < 2:651872/101‑1 (MQ=21)
cAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGGGTCGCCCCGGCGCAATACCCTAGTAAAAAACGCCCCCGGACCGGGAGCCGaa > 1:199387/1‑101 (MQ=2)
aaaGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGGATCGCCTCGGCGAAAACCCTTAGTAAAAACCCCCCGCGGGCAggggaccgcag > 2:1128968/1‑93 (MQ=12)
aGATCCCGGGGGTCCGGGG..GCGGTG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGt < 1:4255922/101‑1 (MQ=25)
aGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGCGGGATCGCCTCGGCGCAAACCCTTAGTAAAAACCCCCCCCGGACAcggggccccaggg > 2:1815489/1‑91 (MQ=2)
ggccgggggcgg..g....c.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCg < 2:1616190/91‑1 (MQ=38)
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TATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCG > NC_014034/2330195‑2330383
Base quality scores:
ATCG
< 3 ≤
ATCG
< 12 ≤
ATCG
< 23 ≤
ATCG
< 33 ≤
ATCG
< 41 ≤
ATCG
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