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 |
679,872 |
C→T |
55.6% |
T237T (ACG→ACA) |
yccS ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 679,872 | 0 | C | T | 55.6%
| 9.2
/ 49.4
| 63 | T237T (ACG→ACA) | yccS | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (20/8); new base T (17/18); total (37/26) |
| Fisher's exact test for biased strand distribution p-value = 7.80e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
TTTGATACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGT > minE/679805‑679934
|
tttGATACTGAATATGAGAAGAGCTGGCACGCTCGTTAATATCCTGTGCGACAAAGTAATAATGCAGCg > 1:1412909/1‑69 (MQ=255)
tttGATACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCg > 1:366786/1‑69 (MQ=255)
aTACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGc < 1:791502/68‑1 (MQ=255)
aTACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGc < 1:2037241/68‑1 (MQ=255)
aTACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGc < 1:168687/68‑1 (MQ=255)
aTACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGc < 1:1773401/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2953000/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:3433005/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:338587/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2218590/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:3112861/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2291669/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:8887/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2322992/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2560421/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2606599/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2626916/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:2798362/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:850877/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:1651254/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:633611/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:1761831/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:1809576/68‑1 (MQ=255)
gAATATCCTGTGCGACAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGt < 1:675762/68‑1 (MQ=255)
tCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCgg > 1:385435/1‑69 (MQ=255)
tCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCgg > 1:265008/1‑69 (MQ=255)
tCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCgg > 1:1738057/1‑69 (MQ=255)
tCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCgg > 1:2014042/1‑69 (MQ=255)
tCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCgg > 1:575254/1‑69 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:297995/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:3261784/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:750789/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:492838/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:420257/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:941154/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:1473273/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2124592/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2120896/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2129038/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2138954/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:1869079/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:1773355/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2141504/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2172457/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2822891/1‑66 (MQ=255)
cAAAGTAATAATGCAGTGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTcagca > 1:2293233/1‑66 (MQ=255)
aaGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCgag < 1:142651/69‑1 (MQ=255)
aaGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCgag < 1:2909367/69‑1 (MQ=255)
aaGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCgag < 1:2127996/69‑1 (MQ=255)
aaGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCgag < 1:2892984/69‑1 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATc > 1:2260343/1‑42 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCg > 1:2857847/1‑54 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:1101822/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:1426164/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:1243999/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:36418/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:362421/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:2250185/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:3253464/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:2292678/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGagag > 1:2954949/1‑69 (MQ=255)
gTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACCTAAGCGGGTCAGCAGCGagag > 1:46371/1‑69 (MQ=255)
atGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGt > 1:3372933/1‑69 (MQ=255)
|
TTTGATACTGAATATGAGAAGAGCTGGCACGCTCGTGAATATCCTGTGCGACAAAGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGT > minE/679805‑679934
|
| 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
