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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,581,839 |
C→T |
57.7% |
M222I (ATG→ATA) |
ydeM ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,581,839 | 0 | C | T | 57.7%
| 21.1
/ 65.3
| 52 | M222I (ATG→ATA) | ydeM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (11/11); new base T (12/18); total (23/29) |
| Fisher's exact test for biased strand distribution p-value = 5.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACT > W3110S.gb/1581772‑1581901
|
aGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGAc > 1:1865283/1‑68 (MQ=255)
gCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACa > 1:432020/1‑68 (MQ=255)
cTTTCAAACTTACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGAtata < 1:555766/69‑1 (MQ=255)
cTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGAtata < 1:1638177/69‑1 (MQ=255)
cTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGAtata < 1:3434872/69‑1 (MQ=255)
gATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGc < 1:411956/69‑1 (MQ=255)
gATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGc < 1:1980679/69‑1 (MQ=255)
aTGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGcc < 1:1286962/69‑1 (MQ=255)
tGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCg > 1:562161/1‑69 (MQ=255)
aTCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGaaa > 1:536281/1‑68 (MQ=255)
tggTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa > 1:1125080/3‑68 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGt > 1:595082/1‑53 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa > 1:2788278/1‑68 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa > 1:868099/1‑68 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa > 1:569338/1‑68 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa > 1:3101012/1‑68 (MQ=255)
tCGTTTTTAACCCATTGCATAAAAATGGTTGATATAAACTTGCAATAAGCCGt > 1:3305833/1‑53 (MQ=255)
cGTTTTTAACCCATTGCATAAAAATGGTTTATATaa < 1:478234/36‑1 (MQ=38)
gTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATc > 1:2864350/1‑69 (MQ=255)
gTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATc > 1:457968/1‑69 (MQ=255)
tAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAg < 1:2184642/42‑1 (MQ=255)
tAACCCATTGCATAAAAATGGTTGATATAAACTTGCCATAAg < 1:614053/42‑1 (MQ=255)
aaCCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGa < 1:1857149/68‑1 (MQ=255)
aTTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGTCACAGAAAAATCAAt < 1:2108742/61‑1 (MQ=255)
aTTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt > 1:1735405/1‑61 (MQ=255)
aTTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt > 1:865857/1‑61 (MQ=255)
aTTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt > 1:2639365/1‑61 (MQ=255)
tGCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAAt < 1:527989/69‑1 (MQ=255)
gCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACgg < 1:812526/65‑1 (MQ=255)
gCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACgg < 1:169943/65‑1 (MQ=255)
gCATAAAAATGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACgg < 1:291117/65‑1 (MQ=255)
gCATAAAAATGGTTGACATAAACTTGCCATAAGGCGTGGGAGGCACAGAAAAATCAATGATACGGAAtg > 1:117652/1‑69 (MQ=255)
gCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGaaa < 1:2900501/51‑1 (MQ=255)
gCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAAtg > 1:1117481/1‑69 (MQ=255)
aTAAAAATGGTTGACATAAACTTGCCATAAGCCGTgg < 1:2313229/37‑1 (MQ=255)
aaaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt < 1:3133232/69‑1 (MQ=255)
aaaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt < 1:2234040/69‑1 (MQ=255)
aaaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt < 1:3443955/69‑1 (MQ=255)
aaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATAc > 1:972022/1‑58 (MQ=255)
aaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAAtgtg < 1:3006663/66‑1 (MQ=255)
aaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt > 1:2214719/1‑68 (MQ=255)
aaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt > 1:13279/1‑68 (MQ=255)
aaaaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt > 1:1636295/1‑68 (MQ=255)
aaaaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt > 1:195240/1‑68 (MQ=255)
aaaaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGtt > 1:1880384/1‑68 (MQ=255)
aaaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:1338741/69‑1 (MQ=255)
aaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtctc < 1:2308845/69‑1 (MQ=255)
aaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:3555877/68‑1 (MQ=255)
aaTGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:3548556/68‑1 (MQ=255)
aaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:2214483/68‑1 (MQ=255)
aaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:2073548/68‑1 (MQ=255)
aaTGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct < 1:3149745/68‑1 (MQ=255)
tGGTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCAc < 1:2502479/69‑1 (MQ=255)
ggTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACt < 1:159295/69‑1 (MQ=255)
ggTTGATATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACt < 1:164058/69‑1 (MQ=255)
tGATATAAACTTGCCATAAGCCGTGGGAGGCACAGaa < 1:1559042/37‑1 (MQ=255)
|
AGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACT > W3110S.gb/1581772‑1581901
|
| 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
