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 |
|
A1 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,243,465 |
C→A |
R426L (CGC→CTC) |
uxaC ← |
D‑glucoronate/D‑galacturonate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,243,465 | 0 | C | A | 97.0%
| 115.0
/ NA
| 33 | R426L (CGC→CTC) | uxaC | D‑glucoronate/D‑galacturonate isomerase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (15/17); total (16/17) |
| Fisher's exact test for biased strand distribution p-value = 4.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGCGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCTCAGCAGACC > NC_000913/3243390‑3243541
|
tcGCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAg > 1:544088/1‑81 (MQ=255)
cGCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAg > 2:544088/1‑80 (MQ=255)
cGCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAg > 1:544078/1‑80 (MQ=255)
gCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTa > 2:544093/1‑81 (MQ=255)
gCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTa < 2:544020/81‑1 (MQ=255)
cccAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTAt > 1:544083/1‑81 (MQ=255)
ccAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTAtt < 2:544021/81‑1 (MQ=255)
gcagGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGt > 2:544081/1‑81 (MQ=255)
agGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGa < 2:544022/81‑1 (MQ=255)
gTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACg < 2:544023/81‑1 (MQ=255)
tCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTa < 2:544024/80‑1 (MQ=255)
cgccgGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGa < 2:544025/81‑1 (MQ=255)
gccgGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTTTATGAc < 2:544027/81‑1 (MQ=255)
gccgGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGAc < 1:544027/81‑1 (MQ=255)
gccgGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAACGCGGAGGAAGTATTCGTGACGGGTGTATGa > 2:544075/1‑80 (MQ=255)
gTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGa < 2:544028/81‑1 (MQ=255)
ttCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGc > 2:544076/1‑80 (MQ=255)
gCCCGCCTCCACCCAGCGACGGATCATCTGGCTCAGAATGCGGCGGAAGTCTTCGTTACGGGTGTATGACAGGAAGCTACg > 2:544097/1‑81 (MQ=255)
tCCACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTgt > 1:544093/1‑79 (MQ=255)
ccACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGGCAGGAAGCTACGGCTgtc < 2:544030/79‑1 (MQ=255)
ccACCCAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTgtc < 2:544029/79‑1 (MQ=255)
cccAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTgtcagt > 1:544108/1‑79 (MQ=255)
ccAGCGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGtcagtcag < 2:544031/81‑1 (MQ=255)
cGACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATa < 1:544033/81‑1 (MQ=255)
gACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATAc > 1:544111/1‑81 (MQ=255)
gACCGATCATCTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATAc > 1:544102/1‑81 (MQ=255)
atcTGGCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAg > 1:544084/1‑81 (MQ=255)
gCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGc < 2:544033/77‑1 (MQ=255)
gCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGc < 1:544035/80‑1 (MQ=255)
gCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCt > 1:544087/1‑81 (MQ=255)
gCACAGAATGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCt > 2:544084/1‑81 (MQ=255)
aaTGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCTcagcag < 1:544036/81‑1 (MQ=255)
tGCGGAGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCTCAGCAGAc < 1:544037/81‑1 (MQ=255)
cggaggAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCTCAGCAGAcc > 2:544113/1‑80 (MQ=255)
|
TCGCCCAGCAGGTTGATGTCCGCCGGTGCTTCGCCCGCTTCCACCCAGCGACCGATCATCTGGCACAGAATGCGGCGGAAGTATTCGTGACGGGTGTATGACAGGAAGCTACGGCTGTCAGTCAGCATACCGACAAAGCGGCTCAGCAGACC > NC_000913/3243390‑3243541
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
