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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,573,836 |
A→G |
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 | 91.5%
| 145.0
/ 3.8
| 47 | V200A (GTG→GCG) | yihN | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (0/4); new base G (13/30); total (13/34) |
| Fisher's exact test for biased strand distribution p-value = 5.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
TAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAA > W3110S.gb/3573774‑3573887
|
tAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAacg < 1:3530592/71‑1 (MQ=255)
tAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAacg < 1:74865/71‑1 (MQ=255)
tAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAacg < 1:252901/71‑1 (MQ=255)
tAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAacg < 1:3739087/71‑1 (MQ=255)
tttCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGt < 1:3655940/67‑1 (MQ=255)
tttCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGt < 1:483209/67‑1 (MQ=255)
tttCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGt < 1:1974342/67‑1 (MQ=255)
tttCAGCACCGAGGTCATACTGGGGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGt < 1:1685187/67‑1 (MQ=255)
ccGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGt < 1:477273/59‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:3218215/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:3674561/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:235219/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:3728145/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:3223070/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:711331/71‑1 (MQ=255)
aTACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTATCATTCAg < 1:4075222/71‑1 (MQ=255)
tACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:668949/70‑1 (MQ=255)
tttttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa < 1:2432110/71‑1 (MQ=255)
tttttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaa < 1:1235891/71‑1 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAg > 1:1016165/1‑60 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:4039556/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:1220918/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:264390/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:2197952/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:2110531/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:1678405/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaaa > 1:1995911/1‑71 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaa > 1:1534184/1‑70 (MQ=255)
tttCGATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGaaa > 1:748606/1‑70 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAAGGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:3840854/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:860500/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:3161118/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:748612/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:163088/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:659797/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:1749116/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:1884025/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:1999768/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:3942146/68‑1 (MQ=255)
gATGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:3744167/68‑1 (MQ=255)
aTGCTCCGTCTTCTTTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:741365/67‑1 (MQ=255)
tcttctTTTTTCGACTCAACGGACGGTGCCTCTTCTTTGTCATTCAg < 1:285997/47‑1 (MQ=255)
cttTTTTCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataat < 1:3383471/58‑1 (MQ=255)
tttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataataa > 1:42031/1‑58 (MQ=255)
tttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataataa > 1:496929/1‑58 (MQ=255)
tttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaataataa > 1:3019146/1‑58 (MQ=255)
ttttCGCCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAaat < 1:2999896/52‑1 (MQ=255)
|
TAGTTTTGTCTTTCAGCACCGAGGTCATACTGGTGTTTTTCGATGCTCCGTCTTCTTTTTTCACCTCAACGGACGGTGCCTCTTCTTTGTCATTCAGGACAAAGAAAATAATAA > W3110S.gb/3573774‑3573887
|
| 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
