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 |
2,949,029 |
T→C |
25.8% |
A40A (GCA→GCG) |
yjjP ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,949,029 | 0 | T | C | 25.8%
| 88.9
/ 30.4
| 81 | A40A (GCA→GCG) | yjjP | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (19/41); new base C (19/2); total (38/43) |
| Fisher's exact test for biased strand distribution p-value = 2.53e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.21e-01 |
TTTAATAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAAATAA > minE/2948966‑2949097
|
tttAATAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCg > 1:2441216/1‑69 (MQ=255)
tttAATAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCg > 1:1474122/1‑69 (MQ=255)
tttAATAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCg > 1:1807594/1‑69 (MQ=255)
aTAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGAc < 1:3207823/67‑1 (MQ=255)
aTAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGAc < 1:2705771/67‑1 (MQ=255)
aTAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGAc < 1:435751/67‑1 (MQ=255)
gTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTc > 1:2406012/1‑67 (MQ=255)
aGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAg < 1:1019658/69‑1 (MQ=255)
aGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAg < 1:3073478/69‑1 (MQ=255)
aGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAg < 1:2677414/69‑1 (MQ=255)
aGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAg < 1:2411492/69‑1 (MQ=255)
gCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAg < 1:636654/68‑1 (MQ=255)
aCTATGGCGTTCGAATAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:1533563/69‑1 (MQ=255)
aCTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:892442/69‑1 (MQ=255)
aCTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:356668/69‑1 (MQ=255)
aCTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:1346807/69‑1 (MQ=255)
aCTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:1528515/69‑1 (MQ=255)
aCTATGGCGTGCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa < 1:3257170/69‑1 (MQ=255)
aTGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAg > 1:1547165/1‑68 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGCCCCAGTCGTg > 1:2607127/1‑55 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAgg > 1:135601/1‑58 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGaa > 1:1113495/1‑60 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCtcatca > 1:3044870/1‑69 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCtcatca > 1:3082763/1‑69 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCtcatca > 1:398744/1‑69 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCtcat > 1:2546524/1‑67 (MQ=255)
ttCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCtaatca > 1:2696841/1‑69 (MQ=255)
gaggTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:1573179/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:597368/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:75755/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:1528759/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:896593/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCt < 1:162228/58‑1 (MQ=255)
gagaTAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACACAGTCGTGAGGAAAGCt < 1:1571492/58‑1 (MQ=255)
aGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACgcgc > 1:2361965/1‑68 (MQ=255)
aGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACgcgc > 1:1921621/1‑68 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:2833823/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:3027435/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:35430/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:2687286/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:264278/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:392147/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:41752/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:1471305/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:2364348/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:1825114/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:1701014/69‑1 (MQ=255)
aCTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTc < 1:713739/69‑1 (MQ=255)
gACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCa < 1:1016262/67‑1 (MQ=255)
gACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCa < 1:99487/67‑1 (MQ=255)
gACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCa < 1:2788916/67‑1 (MQ=255)
cGCTGTCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCAt < 1:2532768/69‑1 (MQ=255)
gCTGTCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCAt < 1:3284522/68‑1 (MQ=255)
tCCATTCCCAACGCCCGCCCCAGTCGTGAGGAAAGCtcatc > 1:2756318/1‑41 (MQ=37)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATcaaccaa > 1:713827/1‑47 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCAt > 1:2318045/1‑64 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2898252/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:99128/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:1514105/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:1608525/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:169335/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:600206/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:526813/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2433384/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2533083/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:3406589/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:337170/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2768694/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2929252/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:3167471/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:314488/1‑68 (MQ=255)
tCCATTCCCAACGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTg > 1:2849486/1‑68 (MQ=255)
cccAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGa > 1:91220/1‑69 (MQ=255)
cccAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGa > 1:3176089/1‑69 (MQ=255)
cAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCttt > 1:87721/1‑47 (MQ=255)
cAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGaa > 1:1134434/1‑68 (MQ=255)
cAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGaa < 1:1288917/68‑1 (MQ=255)
cAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGaa < 1:2896322/68‑1 (MQ=255)
cAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGaa < 1:1663295/68‑1 (MQ=255)
aGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAaat < 1:472303/69‑1 (MQ=255)
aGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAaat < 1:2735486/69‑1 (MQ=255)
tGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAaataa > 1:2204290/1‑69 (MQ=255)
tGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAaataa > 1:3218172/1‑69 (MQ=255)
|
TTTAATAGTTGTCAGCACTATGGCGTTCGAAGAGATAGAACTTTCGACGCTGTCCATTCCCAGTGCCCGACCCAGTCGTGAGGAAAGCTCATCAACCAACGCGCTTTCCGCACCATGTTGCAAAAGAAATAA > minE/2948966‑2949097
|
| 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
