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 |
1,927,349 |
G→A |
60.8% |
T108T (ACC→ACT) |
ygeA ← |
predicted racemase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,927,349 | 0 | G | A | 60.8%
| 22.7
/ 36.4
| 56 | T108T (ACC→ACT) | ygeA | predicted racemase |
| Reads supporting (aligned to +/- strand): ref base G (9/13); new base A (16/18); total (25/31) |
| Fisher's exact test for biased strand distribution p-value = 7.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.12e-01 |
TGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACTT > minE/1927288‑1927410
|
tGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCa < 1:3065140/68‑1 (MQ=255)
tGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCa < 1:3395716/68‑1 (MQ=255)
tGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCa < 1:3338487/68‑1 (MQ=255)
tGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCa < 1:1412306/68‑1 (MQ=255)
tCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTg > 1:1027327/1‑69 (MQ=255)
tCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTg > 1:2133943/1‑69 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1496640/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1939033/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1700243/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1455019/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1096904/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:105073/1‑68 (MQ=255)
aTTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGa > 1:1034574/1‑68 (MQ=255)
ccGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCa < 1:2051182/69‑1 (MQ=255)
cGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCa < 1:1322768/68‑1 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGc > 1:1874026/1‑67 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:3428885/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:2370343/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:571073/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:3014485/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:2803619/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:2764270/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:2465258/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:1001869/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:2306146/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:1126611/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:1154449/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:153616/1‑69 (MQ=255)
cGGTAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:1712997/1‑69 (MQ=255)
cGGTAATAGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGc > 1:695743/1‑51 (MQ=255)
cGGGAATTGCACGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCAt > 1:588080/1‑69 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:679067/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:2394380/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:1146532/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:2528315/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:3202289/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:2758891/68‑1 (MQ=255)
aCGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACtt < 1:2989509/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGGCACtt < 1:2152439/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:1285001/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2301230/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2370169/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:574176/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2370408/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:386057/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2420697/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:1683232/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:3316804/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:3287947/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2693214/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:3108643/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2704364/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:3022010/68‑1 (MQ=255)
aCGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:1654497/68‑1 (MQ=255)
cGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:1843503/67‑1 (MQ=255)
cGTCCAGTGGCATCCGCTATGTGTAAGAAAGGCAGAGAGCAACGAGACTCAATGGCATCCGCCACtt < 1:2060992/67‑1 (MQ=255)
|
TGGTGTAACGCGTACCCAGCAGCGCCACACGAGTCATTCCGGCCCCGGTAATTGCACGTCCGGTGGCATCCGCAATGTGTAAGAAAGGCAGAGTGCAACGTGACTCAATGGCATCCGCCACTT > minE/1927288‑1927410
|
| 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
