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 |
2,419,779 |
C→T |
30.0% |
A78A (GCG→GCA) |
wzyE ← |
predicted Wzy protein involved in ECA polysaccharide chain elongation |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,419,779 | 0 | C | T | 30.0%
| 60.4
/ 26.5
| 63 | A78A (GCG→GCA) | wzyE | predicted Wzy protein involved in ECA polysaccharide chain elongation |
| Reads supporting (aligned to +/- strand): ref base C (18/26); new base T (9/10); total (27/36) |
| Fisher's exact test for biased strand distribution p-value = 7.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAC > minE/2419717‑2419841
|
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCTCGTAGAAGCAGCCCGCAGa < 1:2736753/68‑1 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaa > 1:2551417/1‑69 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGa < 1:1441557/68‑1 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGa < 1:421042/68‑1 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGa < 1:3108685/68‑1 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGa < 1:1602996/68‑1 (MQ=255)
tCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGa < 1:1691744/68‑1 (MQ=255)
cAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaa > 1:1531824/1‑68 (MQ=255)
cAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaa > 1:2271070/1‑68 (MQ=255)
cAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaa > 1:1964051/1‑68 (MQ=255)
aGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaaa > 1:934159/1‑68 (MQ=255)
aGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaaa > 1:3379892/1‑68 (MQ=255)
aGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaaa > 1:3219796/1‑68 (MQ=255)
aGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGaaa > 1:3098149/1‑68 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:1877820/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:879019/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:673072/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:669740/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:490287/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:3262695/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:2256135/68‑1 (MQ=255)
cAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGc < 1:1693793/68‑1 (MQ=255)
aGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAg < 1:2500907/69‑1 (MQ=255)
ggCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAg < 1:479380/68‑1 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCTTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:1493226/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:1271858/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:369554/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:1508142/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:3043480/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:1634182/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:2093304/1‑69 (MQ=255)
gggTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:2089291/1‑69 (MQ=255)
ggcttttGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGAttt > 1:1465754/4‑69 (MQ=255)
ggTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGgcgc < 1:2596823/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:2445886/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:1641417/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:2655802/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:894829/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:52918/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:692683/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:737864/69‑1 (MQ=255)
aTAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc > 1:324606/1‑69 (MQ=255)
tAGTAAACCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACAcc < 1:1460867/68‑1 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCaa > 1:2215931/1‑68 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc > 1:347372/1‑69 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc > 1:1737687/1‑69 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc > 1:535507/1‑69 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc > 1:83102/1‑69 (MQ=255)
gTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc > 1:1574787/1‑69 (MQ=255)
aaaCCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACa < 1:1909261/68‑1 (MQ=255)
aaaCCGCGTAGAAGCAGCCTGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACa < 1:1959756/68‑1 (MQ=255)
cgcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCaaa < 1:1727605/69‑1 (MQ=255)
tAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGa < 1:2165794/69‑1 (MQ=255)
tAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGa < 1:2223603/69‑1 (MQ=255)
aGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGa < 1:1950922/68‑1 (MQ=255)
agcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTg > 1:3424591/1‑39 (MQ=255)
agcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAAt > 1:52690/1‑68 (MQ=255)
agcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAAt > 1:3410501/1‑68 (MQ=255)
gcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAc < 1:2028398/69‑1 (MQ=255)
gcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAc < 1:3343413/69‑1 (MQ=255)
gcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAc < 1:3339226/69‑1 (MQ=255)
gcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAc < 1:2256910/69‑1 (MQ=255)
gcagcCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAc < 1:2519922/69‑1 (MQ=255)
|
TCAGCAACGCGTTTGCGTAGGCGGGTTTTGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAACATCAAAGCGAAATAC > minE/2419717‑2419841
|
| 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
