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 |
2,412,668 |
G→A |
31.8% |
M21I (ATG→ATA) |
aslA → |
acrylsulfatase‑like enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,412,668 | 0 | G | A | 31.8%
| 59.4
/ 32.6
| 69 | M21I (ATG→ATA) | aslA | acrylsulfatase‑like enzyme |
| Reads supporting (aligned to +/- strand): ref base G (8/39); new base A (12/10); total (20/49) |
| Fisher's exact test for biased strand distribution p-value = 3.47e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.28e-01 |
TTGCATGGAATTTTCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACG > minE/2412602‑2412726
|
ttGCATGGAATTTTCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATg > 1:1362441/1‑67 (MQ=255)
ttttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:1980313/69‑1 (MQ=255)
tttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:1429789/68‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:2371832/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:959744/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:890427/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:584432/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:3087348/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:1898195/67‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1822228/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:2312476/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa > 1:3262029/1‑69 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:355039/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:465792/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa > 1:1073180/1‑69 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1909196/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1767687/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1755522/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:275135/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:605748/69‑1 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa > 1:2786528/1‑69 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa > 1:2790555/1‑69 (MQ=255)
ttCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCGCTTCCTCTCATGGCCAGCGCAGCAGa < 1:2538550/69‑1 (MQ=255)
tCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1264356/68‑1 (MQ=255)
tCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:2092804/68‑1 (MQ=255)
ttttCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCgcagca < 1:2599382/63‑1 (MQ=255)
ttCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATAcccc > 1:1818228/1‑69 (MQ=255)
ttCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATAcccc > 1:3100164/1‑69 (MQ=255)
ttCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATAccc > 1:1521256/1‑68 (MQ=255)
ttCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATAcc > 1:326179/1‑67 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:3205990/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:873795/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:2539798/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:2195057/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:660999/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:1550988/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:1678766/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:2257438/68‑1 (MQ=255)
cACCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:1734001/68‑1 (MQ=255)
aCCCAAACTTCTTGTTGTTGCTGTCGCCGCAGCTCTTCCTCTCATAGCCAGCGCAGCAGATACCCCg < 1:1907313/67‑1 (MQ=255)
ccAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCa < 1:570526/68‑1 (MQ=255)
cAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTACTCTCATGGCCAGCgcagca < 1:2856553/55‑1 (MQ=255)
cGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGcc < 1:596100/69‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:2595533/68‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:2571554/68‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:1288156/68‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:194377/68‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:2428542/68‑1 (MQ=255)
tgCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:2836132/68‑1 (MQ=255)
gCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGa < 1:1391478/41‑1 (MQ=255)
ctctTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGAt < 1:109176/69‑1 (MQ=255)
ttCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACcgcacgca < 1:1078471/51‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:1098227/67‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:895225/67‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:1373760/67‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:847897/67‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:2479877/67‑1 (MQ=255)
ccTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACg < 1:2572331/67‑1 (MQ=255)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:2327553/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:2167918/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1964561/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1945796/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:2824330/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1785677/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1621358/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1336678/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:3223864/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:277152/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgca > 1:1164192/1‑40 (MQ=38)
cATAGCCAGCGCAGCAGATACCCCGTCAACCGCCACcgc > 1:893928/1‑39 (MQ=38)
|
TTGCATGGAATTTTCGTTTTCACCCAAACGTCTTGTTGTTGCTGTCGCCGCCGCTCTTCCTCTCATGGCCAGCGCAGCAGATACCCCGTCAACTGCCACCGCACGCAAAGGCTTTGCCGGATACG > minE/2412602‑2412726
|
| 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
