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 |
1,426,109 |
A→T |
21.0% |
D54E (GAT→GAA) |
napB ← |
nitrate reductase, small, cytochrome C550 subunit, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,426,109 | 0 | A | T | 21.0%
| 137.3
/ 28.7
| 76 | D54E (GAT→GAA) | napB | nitrate reductase, small, cytochrome C550 subunit, periplasmic |
| Reads supporting (aligned to +/- strand): ref base A (4/56); new base T (8/8); total (12/64) |
| Fisher's exact test for biased strand distribution p-value = 2.15e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGATACTTCCGGC > minE/1426047‑1426163
|
tGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGc < 1:3139154/69‑1 (MQ=255)
tGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGc < 1:1094534/69‑1 (MQ=255)
tGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGc < 1:559757/69‑1 (MQ=255)
tGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGc < 1:7716/69‑1 (MQ=255)
gATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGc < 1:2060730/68‑1 (MQ=255)
aaCCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCtt > 1:1930579/1‑69 (MQ=255)
aaCCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCtt > 1:2550075/1‑69 (MQ=255)
aaCCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCtt > 1:1565985/1‑69 (MQ=255)
ttCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTgg < 1:2679513/69‑1 (MQ=255)
ttCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTgg < 1:686482/69‑1 (MQ=255)
ttCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTgg < 1:359329/69‑1 (MQ=255)
tCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCTGCATCCGATCCTGCTCTTTTGGc < 1:2609431/69‑1 (MQ=255)
cAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCa > 1:282029/1‑69 (MQ=255)
cAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCa > 1:1679293/1‑69 (MQ=255)
cAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCa > 1:1877244/1‑69 (MQ=255)
cAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCa > 1:1046817/1‑69 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGCTTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:3308014/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:496626/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:3246939/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2886524/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1004985/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:376764/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2492840/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2901939/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2367886/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2168954/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:3185773/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1043251/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:527909/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1912939/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1371907/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1413034/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:643493/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:1524752/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:163121/69‑1 (MQ=255)
gCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCAGCATCCGATCCTGCTCTTTTGGCATCCg < 1:728794/69‑1 (MQ=255)
cTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:2890437/68‑1 (MQ=255)
aTGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAAt < 1:2136994/69‑1 (MQ=255)
aTGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAAt < 1:1484911/69‑1 (MQ=255)
aTGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAAt < 1:2680607/69‑1 (MQ=255)
cGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGc < 1:1617740/69‑1 (MQ=255)
cGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGc < 1:642696/69‑1 (MQ=255)
gggATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCg < 1:428330/62‑1 (MQ=255)
tCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCtt < 1:1648214/69‑1 (MQ=255)
tCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCtt < 1:385350/69‑1 (MQ=255)
tCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCtt < 1:2894429/69‑1 (MQ=255)
tCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCtt < 1:1168810/69‑1 (MQ=255)
tCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCta < 1:1584927/69‑2 (MQ=255)
aTTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCtt < 1:2012251/67‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:2541644/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:545303/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:394981/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:320239/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:811213/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:2821284/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:1436990/43‑1 (MQ=255)
tGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:2335458/43‑1 (MQ=255)
ggcggcTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCtgc > 1:873543/1‑68 (MQ=255)
ggcggcTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCtgc > 1:657285/1‑68 (MQ=255)
ggcggcTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCtgc > 1:1861260/1‑68 (MQ=255)
ggcggcTGATTCACATAGTTCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCtgc > 1:24996/1‑68 (MQ=255)
ggcTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTc > 1:2976752/1‑69 (MQ=255)
gATTCACATAGTTCAGCGGCATCCGATCCTGctct < 1:1902733/35‑1 (MQ=255)
tCACATAGTTCAGCGGCATCCGATCCTGCTTTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGa < 1:2681268/67‑1 (MQ=255)
tCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGa < 1:25232/67‑1 (MQ=255)
tCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGa < 1:54516/67‑1 (MQ=255)
tCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGa < 1:1726362/67‑1 (MQ=255)
tCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGa < 1:2727984/67‑1 (MQ=255)
tCATCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:1959971/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:2087407/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:1904078/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:3426727/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:1349728/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:108656/68‑1 (MQ=255)
tCAGCGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCACCTTCCTGCGTCCCGGATACTTCCGGc < 1:1616757/68‑1 (MQ=255)
cGGCATCCGTTCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGCGTCCCGGATACTTCCGGc < 1:1958147/64‑1 (MQ=255)
|
TGATAACCTTCAACGCTATGCGGGATCATTGGCGGCTGATTCACATAGTTCAGCGGCATCCGATCCTGCTCTTTTGGCATCCGAATGGCCCCTTCCTGTGTCCCGGATACTTCCGGC > minE/1426047‑1426163
|
| 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
