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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,820,171 |
G→A |
10.0% |
A166V (GCA→GTA) |
alaS ← |
alanyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,820,171 | 0 | G | A | 10.0%
| 151.4
/ 5.4
| 50 | A166V (GCA→GTA) | alaS | alanyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base G (29/16); new base A (2/3); total (31/19) |
| Fisher's exact test for biased strand distribution p-value = 3.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTACTTCTTTTTCC > W3110S.gb/2820104‑2820239
|
aTCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCg < 1:4150943/70‑1 (MQ=255)
aTCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCg > 1:481108/1‑70 (MQ=255)
cGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTAt > 1:2606611/1‑71 (MQ=255)
cGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTAt > 1:123875/1‑71 (MQ=255)
aggTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCa > 1:334842/2‑65 (MQ=255)
gTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGtt < 1:3398840/71‑1 (MQ=255)
gTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGt > 1:3363297/1‑70 (MQ=255)
cGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGc > 1:1048712/1‑71 (MQ=255)
cGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGc > 1:2053922/1‑71 (MQ=255)
cGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGc > 1:4597038/1‑71 (MQ=255)
cGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGc > 1:1357424/1‑71 (MQ=255)
gggCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGcc > 1:2345711/1‑71 (MQ=255)
ggCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCg < 1:4287274/71‑1 (MQ=255)
ggCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCg < 1:2727563/71‑1 (MQ=255)
ccGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGAt > 1:1757564/1‑71 (MQ=255)
cACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGc < 1:3740950/64‑1 (MQ=255)
cGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCg < 1:2825138/40‑1 (MQ=255)
cGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGt > 1:1606833/1‑56 (MQ=255)
cGGAACAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGt > 1:1287588/1‑56 (MQ=255)
gtgtCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACg > 1:2768045/1‑71 (MQ=255)
gtgtCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACg > 1:3213355/1‑71 (MQ=255)
tgtCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGcc < 1:3400683/55‑1 (MQ=255)
tCACCCATCTGCCAGAAGTTGTCAGATACGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGtt > 1:5136916/1‑70 (MQ=255)
tCACCCATCTGCCAGAAGTTGTCAGATACGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTc > 1:192371/1‑71 (MQ=255)
aCCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcg < 1:3677315/70‑1 (MQ=255)
aCCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcg < 1:1159228/70‑1 (MQ=255)
cccATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGtt < 1:1792688/44‑1 (MQ=255)
ccATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTg < 1:4261450/41‑1 (MQ=255)
cATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcgcgcg > 1:910712/1‑71 (MQ=255)
aTCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGt < 1:4958365/40‑1 (MQ=255)
tCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaataa < 1:5141420/57‑1 (MQ=255)
tCTGCCAGAAGTTGTCAGATACGTATGGCGCACCTTTGtt < 1:1398721/40‑1 (MQ=255)
tGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaata > 1:3642126/1‑54 (MQ=255)
tGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaata > 1:3770356/1‑54 (MQ=255)
tGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaata > 1:751935/1‑54 (MQ=255)
ccAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCggg < 1:4020680/67‑1 (MQ=255)
ccAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCggg < 1:227241/67‑1 (MQ=255)
gAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaa > 1:1453256/1‑47 (MQ=255)
gAAGTTGTCAGATGCGTATGGCGCACATTTGTTATCGCCGATGCGaa > 1:5135396/1‑47 (MQ=255)
aaGTTGTCAGATACGTATGGCGCACCTTTGTTATCGCCGATGCGaataa < 1:2038085/49‑1 (MQ=255)
aaGTTGTCAGATACGTATGGCGCACCTTTGTTATCGCCGATGCGaataa < 1:2031353/49‑1 (MQ=255)
aGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcgcgcg > 1:1630215/1‑60 (MQ=255)
gTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTagc > 1:1066526/1‑68 (MQ=255)
gTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcg > 1:5014403/1‑52 (MQ=255)
gTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcg > 1:4021881/1‑52 (MQ=255)
gTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTcg > 1:2609853/1‑52 (MQ=255)
cAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTActtctt < 1:482178/69‑1 (MQ=255)
aTGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTACTTCTTTTTcc > 1:4070480/1‑71 (MQ=255)
aTGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTACTTCTTTTTcc > 1:586973/1‑71 (MQ=255)
aTGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTACTTCTTTTTcc > 1:590301/1‑71 (MQ=255)
|
ATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGTTCGCGCGGGATCCCTACTTCTTTTTCC > W3110S.gb/2820104‑2820239
|
| 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
