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 |
287,566 |
C→T |
40.5% |
T70T (ACC→ACT) |
lon → |
DNA‑binding ATP‑dependent protease La |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 287,566 | 0 | C | T | 40.5%
| 29.8
/ 46.1
| 69 | T70T (ACC→ACT) | lon | DNA‑binding ATP‑dependent protease La |
| Reads supporting (aligned to +/- strand): ref base C (25/16); new base T (8/20); total (33/36) |
| Fisher's exact test for biased strand distribution p-value = 1.36e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.82e-01 |
GGTCGCGCAGAAAGAAGCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGT > minE/287512‑287619
|
ggTCGCGCAGAAAGAAGCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGc < 1:668775/69‑1 (MQ=255)
gcAGAAAGAAGCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCta < 1:3159249/68‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTTTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:2305033/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:106479/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:1202033/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:292008/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:2455574/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:2344283/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTATCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:1291892/69‑1 (MQ=255)
agaagCTTCAACGGATGAGCCGGGAGTAAACGATCTTATCACCGTCGGGACCGTGGCCTCTATATAGCa < 1:1959057/69‑1 (MQ=255)
gaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:1406592/68‑1 (MQ=255)
gaagCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:1643107/68‑1 (MQ=255)
ttCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCa < 1:1790506/63‑1 (MQ=255)
cAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCta < 1:1642262/54‑1 (MQ=255)
aCGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa < 1:472338/67‑1 (MQ=255)
aCGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa < 1:2697751/67‑1 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCCCCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGCAACTg > 1:1841466/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:855466/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:188765/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:1147803/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:3146991/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:2562886/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:1492528/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:2327403/1‑69 (MQ=255)
gATGAGCCGGGTGTAAACGATCTTTTCACCGACGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTg > 1:2484347/1‑69 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:1406343/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:1243300/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:2941702/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:2974740/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:2601473/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:374603/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:3141711/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:1500027/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:3190697/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:1846163/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:3233498/69‑1 (MQ=255)
gAGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:3404516/69‑1 (MQ=255)
aGCCGGGTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCt < 1:875079/68‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:309169/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:2641817/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:3063057/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:3060446/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:2222268/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:1977697/69‑1 (MQ=255)
gggTGTAAACGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACgg < 1:1855848/69‑1 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTg > 1:3390828/1‑49 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:1750543/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:754892/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2967874/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:3050556/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2627744/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2714490/1‑50 (MQ=255)
aaaCGATCTTTTCACTGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2045295/1‑50 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGaaa > 1:1116416/1‑51 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:1259294/1‑68 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:1688633/1‑68 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:2538374/1‑68 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:3040662/1‑68 (MQ=255)
aaCGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:984634/1‑68 (MQ=255)
aaCGATCATTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGt > 1:1255165/1‑68 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:984111/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:993208/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:328806/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2952139/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2778375/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2600531/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:2518687/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:1726042/1‑40 (MQ=255)
ttCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGa > 1:1106609/1‑40 (MQ=255)
|
GGTCGCGCAGAAAGAAGCTTCAACGGATGAGCCGGGTGTAAACGATCTTTTCACCGTCGGGACCGTGGCCTCTATATTGCAGATGCTGAAACTGCCTGACGGCACCGT > minE/287512‑287619
|
| 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
