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 |
3,573,836 |
A→G |
80.0% |
V200A (GTG→GCG) |
yihN ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,573,836 | 0 | A | G | 80.0%
| 98.8
/ 19.2
| 45 | V200A (GTG→GCG) | yihN | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (4/5); new base G (17/19); total (21/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
GTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCTAC > W3110S.gb/3573776‑3573894
|
gTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAacg < 1:1488006/69‑1 (MQ=255)
ttGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAacggac < 1:3653437/69‑1 (MQ=255)
ttGTCTTGCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAacg < 1:595311/66‑1 (MQ=255)
gAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGc < 1:1213163/59‑1 (MQ=255)
gAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGc < 1:2117967/59‑1 (MQ=255)
aGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCttt < 1:495919/67‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCtctt < 1:546081/58‑1 (MQ=255)
aCTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCa > 1:1443002/1‑68 (MQ=255)
cTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt > 1:2534032/1‑61 (MQ=255)
tttttCGATGCTCCGTCTTCTTTTTTCGCCTCAacggac < 1:3398494/39‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCtctt < 1:1633585/47‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt < 1:2742425/53‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt < 1:2025179/53‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt < 1:1672389/53‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa > 1:1675972/1‑69 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa > 1:2142997/1‑69 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa > 1:3502368/1‑69 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGa > 1:32001/1‑68 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGa > 1:714399/1‑68 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAg > 1:2253322/1‑67 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa < 1:842663/69‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa > 1:3460045/1‑69 (MQ=255)
tCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaa > 1:254329/1‑68 (MQ=255)
tCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaa > 1:3039359/1‑68 (MQ=255)
tGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:2175581/69‑1 (MQ=255)
tGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:1467119/69‑1 (MQ=255)
tGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:1403694/69‑1 (MQ=255)
tGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataa > 1:453664/1‑68 (MQ=255)
tGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataa > 1:3376923/1‑68 (MQ=255)
tGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataa < 1:1235266/68‑1 (MQ=255)
tcttctTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGcc < 1:710006/68‑1 (MQ=255)
tcttctTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGcc < 1:2008007/68‑1 (MQ=255)
ttcttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCTAc > 1:3486061/1‑69 (MQ=255)
ttcttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCTAc > 1:604664/1‑69 (MQ=255)
ttcttTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCTAc > 1:179984/1‑69 (MQ=255)
ttcttTTTTCACCT‑AACGGACGGTGCCTCTTCTTTGTCATTCa < 1:302088/43‑1 (MQ=39)
cttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt < 1:3454785/36‑1 (MQ=255)
cttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt > 1:3396561/1‑36 (MQ=255)
cttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGt > 1:2667982/1‑36 (MQ=255)
cttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCt > 1:1297951/1‑65 (MQ=255)
tttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGcc < 1:880484/62‑1 (MQ=255)
ttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:663721/55‑1 (MQ=255)
ttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat > 1:787212/1‑55 (MQ=255)
ttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat > 1:2987701/1‑55 (MQ=255)
ttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:1616511/55‑1 (MQ=255)
|
GTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAATGCCTAC > W3110S.gb/3573776‑3573894
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
