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 |
3,521,572 |
G→A |
37.5% |
L157L (CTG→CTA) |
glpX → |
fructose 1,6‑bisphosphatase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,521,572 | 0 | G | A | 37.5%
| 51.5
/ 58.2
| 56 | L157L (CTG→CTA) | glpX | fructose 1,6‑bisphosphatase II |
| Reads supporting (aligned to +/- strand): ref base G (16/19); new base A (8/13); total (24/32) |
| Fisher's exact test for biased strand distribution p-value = 7.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
CCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTACGC > W3110S.gb/3521513‑3521641
|
ccGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACg < 1:3712222/69‑1 (MQ=255)
cTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCt < 1:2360532/71‑1 (MQ=255)
ggATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTa < 1:1363008/71‑1 (MQ=255)
ggATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTa < 1:2501082/71‑1 (MQ=255)
gATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaa < 1:3592669/71‑1 (MQ=255)
aTAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaaa > 1:3215265/1‑71 (MQ=255)
aTAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaaa > 1:2161743/1‑71 (MQ=255)
aTAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTaaa > 1:514395/1‑71 (MQ=255)
tAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAc > 1:1400806/1‑71 (MQ=255)
tAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAAc < 1:4818247/71‑1 (MQ=255)
ccTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac < 1:3741495/71‑1 (MQ=255)
ccTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac < 1:4253426/71‑1 (MQ=255)
ccTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac < 1:1789239/71‑1 (MQ=255)
cTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAAccacg > 1:2558777/1‑71 (MQ=255)
gcAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccacgccac < 1:1559694/71‑1 (MQ=255)
aTGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac < 1:2787724/63‑1 (MQ=255)
aTGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAAccac < 1:515216/63‑1 (MQ=255)
tGTAGCGGCCGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTaa < 1:157507/57‑1 (MQ=255)
tAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTg > 1:3395190/1‑35 (MQ=255)
tAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGa > 1:1058638/1‑36 (MQ=255)
tAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGcc > 1:86956/1‑71 (MQ=255)
tAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGcc > 1:4219587/1‑71 (MQ=255)
ggcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTa > 1:4256550/1‑50 (MQ=255)
gcggcgCTCGGCAAACCGTTGAGCGAACTGACGGTAAc < 1:295007/38‑1 (MQ=255)
cggcgCTCGGCAAACCGTTGAGCGAACTGACTGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATc < 1:3092228/71‑1 (MQ=255)
cTCGGCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAAcc < 1:4959025/47‑1 (MQ=255)
tCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGa < 1:1998634/70‑1 (MQ=255)
cGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGaaa > 1:1435282/1‑71 (MQ=255)
ggCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAAt > 1:3722475/1‑71 (MQ=255)
ggCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAAt > 1:3674026/1‑71 (MQ=255)
gCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg < 1:4118789/71‑1 (MQ=255)
gCAAACCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg < 1:964238/71‑1 (MQ=255)
cAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg > 1:3575324/1‑70 (MQ=255)
cAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg > 1:729648/1‑70 (MQ=255)
aaaCCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATg > 1:2701391/1‑69 (MQ=255)
aaCCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCt < 1:205764/62‑1 (MQ=255)
aCCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcagc < 1:2687301/71‑1 (MQ=255)
aCCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcagc < 1:1258290/71‑1 (MQ=255)
aCCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcagc < 1:3377123/71‑1 (MQ=255)
aCCGTTGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATgcag > 1:4877483/1‑70 (MQ=255)
tGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGt < 1:2850684/49‑1 (MQ=255)
tGAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTc > 1:593538/1‑71 (MQ=255)
gAGCGAACTAACGGTAACGATTCTGGCTAAAccacgccac < 1:4159574/40‑1 (MQ=255)
gAGCGAACTAACGGTAACGATTCTGGCTAAAccacgccac < 1:4539824/40‑1 (MQ=255)
gAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGa > 1:2070174/1‑42 (MQ=255)
gAGCGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGa > 1:2064291/1‑42 (MQ=255)
cGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCg > 1:189774/1‑71 (MQ=255)
cGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCg < 1:2860542/71‑1 (MQ=255)
cGAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCg < 1:3531641/71‑1 (MQ=255)
gAACTGACGGTAACGATTCTGGCTAAACCATGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGc > 1:2210830/1‑69 (MQ=255)
gAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGc > 1:1193420/1‑69 (MQ=255)
gAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGc > 1:4829160/1‑69 (MQ=255)
gAACTAACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGt < 1:2283205/71‑1 (MQ=255)
cTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGc < 1:1960028/47‑1 (MQ=255)
cTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGc < 1:3323221/47‑1 (MQ=255)
tGACGGTAACGATTCTTGCTAAACCACGCCACGATGACGTTATCGc < 1:132216/46‑1 (MQ=39)
tGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTAcgc > 1:2141466/1‑71 (MQ=255)
|
CCGCTGGCGGATAACCTGCGCAATGTAGCGGCGGCGCTCGGCAAACCGTTGAGCGAACTGACGGTAACGATTCTGGCTAAACCACGCCACGATGCCGTTATCGCTGAAATGCAGCAACTCGGCGTACGC > W3110S.gb/3521513‑3521641
|
| 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
