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 |
1,113,349 |
T→C |
42.5% |
K485K (AAA→AAG) |
pps ← |
phosphoenolpyruvate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,113,349 | 0 | T | C | 42.5%
| 18.4
/ 55.4
| 73 | K485K (AAA→AAG) | pps | phosphoenolpyruvate synthase |
| Reads supporting (aligned to +/- strand): ref base T (18/24); new base C (15/16); total (33/40) |
| Fisher's exact test for biased strand distribution p-value = 8.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GGCGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCGCATA > minE/1113304‑1113417
|
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:1156858/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:3342444/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:2112250/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:3165183/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:2797426/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:1882391/69‑1 (MQ=255)
ggcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGt < 1:1742403/69‑1 (MQ=255)
gcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGtt < 1:475191/69‑1 (MQ=255)
gcGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGtt < 1:153027/69‑1 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACgg > 1:745622/1‑51 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACgg > 1:2379823/1‑51 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACgg > 1:738631/1‑51 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACgg > 1:587152/1‑51 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACgg > 1:936695/1‑51 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTc < 1:651237/69‑1 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTc < 1:452961/69‑1 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTc < 1:218451/69‑1 (MQ=255)
gAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTc < 1:3390048/69‑1 (MQ=255)
aaGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTc < 1:1601628/68‑1 (MQ=255)
gAAAGCACGGTCCGGGTTACCGATGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACg > 1:2662468/1‑67 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATGGTTTCTACGc > 1:3104207/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:3078085/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:585011/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:3189165/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:2621115/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:3306947/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1133534/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1352898/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:203200/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1988479/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1414268/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1483526/1‑68 (MQ=255)
gAAAGCACGGTCCGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:1751046/1‑68 (MQ=255)
gAAAGCACGGTACGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGc > 1:3280761/1‑68 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCtt < 1:488280/59‑2 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:2092723/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:1206272/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:3328126/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:3306065/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:3282898/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:1489128/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:91073/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:502102/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:1833843/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:2803214/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:1953006/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:2618240/59‑1 (MQ=255)
ccGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:781099/59‑1 (MQ=255)
cGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGTCATCGTTTCTACGCTg < 1:148864/58‑1 (MQ=255)
cGGGTTACCGACGTTCATCATCACCTTCAACGGCAGGTCCGGCATCGTTTCTACGCTg < 1:3005303/58‑1 (MQ=255)
gTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCa > 1:306744/1‑68 (MQ=255)
catcatcaCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCaa > 1:910285/1‑69 (MQ=255)
catcatcaCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCaa > 1:35854/1‑69 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:894471/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:654221/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:947814/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:3225511/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:3330957/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:2980504/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:1557132/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:1665190/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:2688601/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg < 1:2674673/68‑1 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:1931398/1‑68 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:2317721/1‑68 (MQ=255)
caCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:231583/1‑68 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCtt > 1:1114822/1‑42 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCtt > 1:1957813/1‑42 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCtt > 1:775271/1‑42 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:866856/1‑67 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:245195/1‑67 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:2630235/1‑67 (MQ=255)
aCTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCg > 1:560677/1‑67 (MQ=255)
tttCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCGCATa < 1:2917393/69‑1 (MQ=255)
tttCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCGCATa < 1:3098133/69‑1 (MQ=255)
|
GGCGAAGTCGAAAGCACGGTCCGGGTTACCGACGTTCATCATCACTTTCAACGGCAGATCCGGCATCGTTTCTACGCTGGAGCTTTTCACGCTAAATTCCAGCAACTCCGCATA > minE/1113304‑1113417
|
| 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
