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 |
3,560,998 |
A→G |
13.9% |
F44S (TTT→TCT) |
yihX ← |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,560,998 | 0 | A | G | 13.9%
| 104.2
/ 10.7
| 43 | F44S (TTT→TCT) | yihX | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (17/20); new base G (2/4); total (19/24) |
| Fisher's exact test for biased strand distribution p-value = 6.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.86e-01 |
GAGCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCA > W3110S.gb/3560930‑3561062
|
gagCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:2181182/1‑70 (MQ=255)
gagCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAAc < 1:1990574/71‑1 (MQ=255)
gagCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAAc < 1:749618/71‑1 (MQ=255)
gCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCAACGCTCATGCTGATGAAACGc > 1:2454513/1‑71 (MQ=255)
ccATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGcc > 1:1014221/1‑71 (MQ=255)
ccATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGcc > 1:510742/1‑71 (MQ=255)
aTCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTc > 1:771181/1‑71 (MQ=255)
aTCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTc > 1:1596875/1‑71 (MQ=255)
ctcATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTccc > 1:298999/1‑71 (MQ=255)
tcATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:2004746/1‑62 (MQ=255)
tcATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:1952296/1‑62 (MQ=255)
cATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTccac > 1:2105927/1‑68 (MQ=255)
caGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:1965638/71‑1 (MQ=255)
caGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:413181/71‑1 (MQ=255)
gcgcCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa > 1:1441920/1‑69 (MQ=255)
ccTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAActc < 1:2703009/71‑1 (MQ=255)
ctGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACtcttc > 1:1271020/1‑71 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGaaaa > 1:141426/1‑64 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTcccc < 1:1778543/54‑1 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaaaa > 1:510209/1‑64 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:1435149/62‑1 (MQ=255)
gCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTcccc < 1:1581722/53‑1 (MQ=255)
cGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaaaa > 1:1920013/1‑62 (MQ=255)
cGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:475303/60‑1 (MQ=255)
cGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTcttctt > 1:1110174/1‑70 (MQ=255)
aCGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGc < 1:1601268/71‑1 (MQ=255)
cGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:597003/56‑1 (MQ=255)
cGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACtcttc > 1:312436/1‑64 (MQ=255)
gCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGa < 1:1408113/71‑1 (MQ=255)
cTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCACCCATATGAAAACTCTTCTTAAGCGAt > 1:801117/1‑71 (MQ=255)
cgtcgCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCa < 1:520685/45‑1 (MQ=255)
cTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:37980/71‑1 (MQ=255)
aTTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:1522648/68‑1 (MQ=255)
aTTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:588747/68‑1 (MQ=255)
aTTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGACAGCGGaa < 1:1396601/70‑1 (MQ=255)
tttCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa < 1:172437/69‑1 (MQ=255)
tttCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:1485303/42‑1 (MQ=255)
tCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATAcg > 1:2236165/1‑71 (MQ=255)
tCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaaaa > 1:2113383/1‑42 (MQ=255)
cccACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa < 1:1740267/65‑1 (MQ=255)
cGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTa > 1:1058017/1‑70 (MQ=255)
tGCTTATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGc < 1:1411482/42‑1 (MQ=255)
cTGATGAAACGCCTCCCCCATATGAAAACTcttctt < 1:552670/36‑1 (MQ=255)
cTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTcc < 1:1083195/71‑1 (MQ=255)
atgaAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTaaa > 1:1947795/1‑61 (MQ=255)
atgaAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCa < 1:1471329/69‑1 (MQ=255)
|
GAGCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCA > W3110S.gb/3560930‑3561062
|
| 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
