Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,780,496 |
G→A |
76.6% |
G66R (GGG→AGG) |
yidK → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,780,496 | 0 | G | A | 76.6%
| 87.5
/ 25.0
| 47 | G66R (GGG→AGG) | yidK | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (7/4); new base A (9/27); total (16/31) |
| Fisher's exact test for biased strand distribution p-value = 2.92e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGACTTCAGCGGTGACGCTG > W3110S.gb/3780438‑3780558
|
tATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTAc > 1:2061196/1‑70 (MQ=255)
tATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTAc > 1:659255/1‑70 (MQ=255)
tATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTAc > 1:1806513/1‑70 (MQ=255)
tATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTAc > 1:3305146/1‑70 (MQ=255)
ttGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACaaa < 1:1735425/71‑1 (MQ=255)
ttGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACaa < 1:3183355/70‑1 (MQ=255)
ttGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACaa < 1:1757815/70‑1 (MQ=255)
gCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACaa > 1:2193674/1‑68 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCgg < 1:510248/71‑1 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCgg < 1:1466383/71‑1 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCgg < 1:1286687/71‑1 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCgg < 1:227921/71‑1 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCgg < 1:2823819/71‑1 (MQ=255)
gCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCgc < 1:1285518/71‑2 (MQ=255)
cTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGc < 1:2286234/71‑1 (MQ=255)
cTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGc < 1:1849091/71‑1 (MQ=255)
tCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCAt > 1:3579067/1‑71 (MQ=255)
gTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGt > 1:1162179/1‑71 (MQ=255)
gTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGt > 1:388024/1‑71 (MQ=255)
ttAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTc < 1:549055/71‑1 (MQ=255)
aTGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:1824458/71‑1 (MQ=255)
aTGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:243090/71‑1 (MQ=255)
aTGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:1100580/71‑1 (MQ=255)
tGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCATGCCTACAAAAGCGGCATGTCGGt > 1:1288599/1‑70 (MQ=255)
tGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:1212906/70‑1 (MQ=255)
tGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:2843228/70‑1 (MQ=255)
tGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTg < 1:3172667/71‑1 (MQ=255)
tGCTAACCAACCTTTCCACGGAACAACTGGGCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:918335/70‑1 (MQ=255)
cTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGa < 1:2918251/70‑1 (MQ=255)
cTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGa < 1:3144386/70‑1 (MQ=255)
accaaccTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATg < 1:2674432/69‑1 (MQ=255)
aaccTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCa > 1:2146985/1‑55 (MQ=255)
aaccTTTCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCa > 1:2588035/1‑55 (MQ=255)
tttCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTggg > 1:3184810/1‑69 (MQ=255)
tttCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTggg > 1:1627270/1‑69 (MQ=255)
tttCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTggg > 1:1580377/1‑69 (MQ=255)
tttCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTgg > 1:819698/1‑68 (MQ=255)
tttCCACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTggg > 1:397632/1‑69 (MQ=255)
cACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGa < 1:1862068/71‑1 (MQ=255)
cACGGAACAACTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGa < 1:3355301/71‑1 (MQ=255)
caacTTGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:1544652/47‑1 (MQ=39)
caacTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:3280739/47‑1 (MQ=255)
caacTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:3522192/47‑1 (MQ=255)
caacTGGTCGGCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGt < 1:3172588/47‑1 (MQ=255)
gCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCgg < 1:463530/36‑1 (MQ=255)
gCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGACTTCAGCGGTGACGCTg < 1:234125/71‑1 (MQ=255)
gCCTTTCCAGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGACTTCAGCGGTGACGCTg < 1:2323760/71‑1 (MQ=255)
gggCAGGCCTACTAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGACtt < 1:1399709/49‑1 (MQ=255)
|
TATTGCCGCTTCGTTAATGCTAACCAACCTTTCCACGGAACAACTGGTCGGCCTTTCCGGGCAGGCCTACAAAAGCGGCATGTCGGTGATGGGCTGGGAAGTGACTTCAGCGGTGACGCTG > W3110S.gb/3780438‑3780558
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
