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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,306,522 |
T→A |
44.6% |
A358A (GCA→GCT) |
yeeF ← |
predicted amino‑acid transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,306,522 | 0 | T | A | 44.6%
| 16.2
/ 69.0
| 65 | A358A (GCA→GCT) | yeeF | predicted amino‑acid transporter |
| Reads supporting (aligned to +/- strand): ref base T (14/22); new base A (16/13); total (30/35) |
| Fisher's exact test for biased strand distribution p-value = 2.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CTGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTC > minE/1306456‑1306582
|
cTGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGc < 1:301725/69‑1 (MQ=255)
cTGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGc < 1:2338472/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:493756/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:31951/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:2720218/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:2633528/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:1860069/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:1744611/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:802289/69‑1 (MQ=255)
tGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGc < 1:1832495/68‑1 (MQ=255)
aCAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGcc < 1:1291235/56‑1 (MQ=255)
gTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGtt < 1:748316/69‑1 (MQ=255)
gTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGtt < 1:342032/69‑1 (MQ=255)
gTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGtt < 1:1895062/69‑1 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCGGCGCCGTAGCCATTACCAGGTc > 1:3104988/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2336489/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2806642/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:3393321/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:818022/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2627365/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:443179/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2984312/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:3377247/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:1221131/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2098419/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2042101/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:2032862/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:1676959/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:531798/1‑61 (MQ=255)
tAACGAAGGTGAACGCCACCAACGCACCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTc > 1:763112/1‑61 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt > 1:3068841/1‑52 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:1163008/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt > 1:2837812/1‑52 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:314005/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:3249551/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:2489698/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:465940/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:226705/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:1766510/52‑1 (MQ=255)
tAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCAt < 1:168605/52‑1 (MQ=255)
aGCGCACCAAAGTTAATCAGTGCCGTTGCCATTACCAGGTCGAAg > 1:2922614/1‑45 (MQ=255)
aGCGCACCAAAGTTAATCAGTGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATcgc > 1:3411114/1‑68 (MQ=255)
aGCGCACCAAAGTTAATCAGTGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATcgc > 1:2589132/1‑68 (MQ=255)
aGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATcgc > 1:631474/1‑68 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:3386616/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:913587/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:1489660/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:2798674/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:269756/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:2646876/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:2623212/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:2428026/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:1781750/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:1786154/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:1813718/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGGCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:1087106/69‑1 (MQ=255)
aCCAAAGTTAATCAGCGCCGTAGCCATTACCAGGGCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAc < 1:2695795/69‑1 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGTCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:3323699/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAAcc > 1:3183023/1‑57 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:50729/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:2387056/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:1711870/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:1637197/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:299622/1‑69 (MQ=255)
aGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTc > 1:88981/1‑69 (MQ=255)
|
CTGCGAGATGACCGACAGGTTAACGAAAGTGAACGCCACCAGCGCACCAAAGTTAATCAGCGCCGTTGCCATTACCAGGTCGAAGTTGATTGCCAGCAGGGCAATCGCGCCAACCAGGATGATGTTC > minE/1306456‑1306582
|
| 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
