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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,602,757 |
T→A |
8.1% |
L260F (TTA→TTT) |
trkH ← |
potassium transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,602,757 | 0 | T | A | 8.1%
| 161.3
/ 6.9
| 62 | L260F (TTA→TTT) | trkH | potassium transporter |
| Reads supporting (aligned to +/- strand): ref base T (28/29); new base A (3/2); total (31/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.20e-01 |
TAAACTGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGTTAATAG > W3110S.gb/3602690‑3602827
|
tAAACTGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTaa > 1:826861/1‑70 (MQ=255)
cTGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGt > 1:120219/1‑70 (MQ=255)
tGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTg > 1:2109457/1‑70 (MQ=255)
tGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTAAACAGTg > 1:277578/1‑70 (MQ=255)
tACTCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGaaa < 1:2668330/71‑1 (MQ=255)
tACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGaaa < 1:623309/71‑1 (MQ=255)
tACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGaa < 1:873052/70‑1 (MQ=255)
tACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTAAACAGTGaa > 1:1004038/1‑70 (MQ=255)
cGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTAAACAGTGAAAAg > 1:546351/1‑71 (MQ=255)
ccGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTg < 1:937118/71‑1 (MQ=255)
gATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCa < 1:431/71‑1 (MQ=255)
aTAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAg < 1:136651/66‑1 (MQ=255)
aaaCATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGAc > 1:1083739/1‑71 (MQ=255)
aaaCATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGAc > 1:265971/1‑71 (MQ=255)
cATGCTAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGt < 1:863629/71‑1 (MQ=255)
cATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCg > 1:1751388/1‑70 (MQ=255)
cATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCg > 1:1032438/1‑70 (MQ=255)
cATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTAAACAGTGAAAAGTGCAGACCGt < 1:1785228/71‑1 (MQ=255)
cATGCGAAATTCCGGATCGCGCCAATAAACCTTAAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCg > 1:1256490/1‑70 (MQ=255)
tGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACtt < 1:2510600/47‑1 (MQ=255)
tGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACtt < 1:1722550/47‑1 (MQ=255)
cGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTaa > 1:440709/1‑47 (MQ=255)
cGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGt > 1:972642/1‑70 (MQ=255)
cGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGt > 1:1295970/1‑70 (MQ=255)
ccGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAg > 1:307900/1‑62 (MQ=255)
gATCGCGCCAATAAACCTTCAGACTACGCCCACtt < 1:700393/35‑1 (MQ=255)
gATCGCGCCAATAAACCTTCAGACTACGCCCACtt < 1:1640993/35‑1 (MQ=255)
tCGCGCCAATAAACCTTCAGACTACGCCCACTTAACa < 1:1991077/37‑1 (MQ=255)
ctcgcCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGAt > 1:1213285/3‑70 (MQ=255)
cgcgCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCgg > 1:2227379/1‑66 (MQ=255)
cgcgCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGAt > 1:1240201/1‑70 (MQ=255)
cgcgCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGAt > 1:2640839/1‑70 (MQ=255)
cgcgCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGAt > 1:78127/1‑70 (MQ=255)
cgcgCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGAt > 1:658085/1‑70 (MQ=255)
tAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGaa < 1:1865011/71‑1 (MQ=255)
tAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGaa < 1:1507204/71‑1 (MQ=255)
aaaCCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATcagca > 1:1696693/1‑66 (MQ=255)
aaCCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAgg > 1:2208677/1‑67 (MQ=255)
aCCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa < 1:703828/70‑1 (MQ=255)
ccTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa > 1:1803642/1‑69 (MQ=255)
ccTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa > 1:2762762/1‑69 (MQ=255)
ccTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa > 1:2341140/1‑69 (MQ=255)
cTTCAGACTACGCCCACTTAACAGTGAAAAGTGCa > 1:784053/1‑35 (MQ=255)
cTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATcag < 1:1744382/60‑1 (MQ=255)
tCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATcagca > 1:1930361/1‑60 (MQ=255)
cAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGc < 1:2120803/69‑1 (MQ=255)
cAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGc < 1:44758/69‑1 (MQ=255)
cAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGc < 1:2400958/69‑1 (MQ=255)
cAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGc < 1:2245111/69‑1 (MQ=255)
aGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTa < 1:1286650/38‑1 (MQ=255)
aGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAAt < 1:718845/71‑1 (MQ=255)
gACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATg < 1:543046/71‑1 (MQ=255)
gACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATg < 1:2248999/71‑1 (MQ=255)
aCTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTa < 1:1035319/40‑1 (MQ=255)
aCTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTa < 1:2234102/40‑1 (MQ=255)
cTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGga > 1:2144733/1‑47 (MQ=255)
cTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGAt < 1:2141159/71‑1 (MQ=255)
tACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGa > 1:1085604/1‑69 (MQ=255)
aCGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCa < 1:2221399/64‑1 (MQ=255)
ccACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGtt < 1:1497282/71‑1 (MQ=255)
ccACTAAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGtt < 1:2646751/71‑1 (MQ=255)
cACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGtt > 1:110517/1‑70 (MQ=255)
aCTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGTTaa < 1:1926560/71‑1 (MQ=255)
cTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGgag < 1:1364138/39‑1 (MQ=255)
cTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGgag < 1:2185077/39‑1 (MQ=255)
cTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGga < 1:1499032/38‑1 (MQ=255)
ttAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGgag < 1:1201252/38‑1 (MQ=255)
ttAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa < 1:1112687/51‑1 (MQ=255)
tAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa > 1:27539/1‑50 (MQ=255)
tAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGa > 1:331889/1‑50 (MQ=255)
tAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGTTAATAg > 1:1468546/1‑71 (MQ=255)
tAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGTTAATAg > 1:1822832/1‑71 (MQ=255)
|
TAAACTGTACGCCGATAAACATGCGAAATTCCGGATCGCGCCAATAAACCTTCAGACTACGCCCACTTAACAGTGAAAAGTGCAGACCGTAGTTACAGCCGGAGATCAGCAGGAAGATAGCAATGATAGTGTTAATAG > W3110S.gb/3602690‑3602827
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
