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
|
315 |
33.5 |
1889570 |
98.7% |
1865005 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,094,484 |
G→A |
L199L (CTC→CTT) |
yggR ← |
Type II/IV secretion system family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,094,484 | 0 | G | A | 100.0%
| 135.4
/ NA
| 37 | L199L (CTC→CTT) | yggR | Type II/IV secretion system family protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/18); total (19/18) |
AATGTTGCCAGCACCAAATGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCGAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGTGCAAACCAAT > NC_000913/3094407‑3094558
|
aaTGTTGCCAGCACCAAATGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAg > 2:577522/1‑80 (MQ=255)
aTGTTGCCAGCACCAAATGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGc < 1:913873/80‑1 (MQ=255)
cAAATGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAg > 2:577533/1‑80 (MQ=255)
aaTGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGAt > 2:577526/1‑81 (MQ=255)
aTGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATc > 2:577578/1‑81 (MQ=255)
aTGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATc > 1:577536/1‑81 (MQ=255)
tGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCt > 2:577534/1‑81 (MQ=255)
gCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCtt > 2:577524/1‑81 (MQ=255)
cccGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTc < 2:577475/81‑1 (MQ=255)
ccGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTcc < 1:577476/81‑1 (MQ=255)
ccGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTcc > 2:577535/1‑81 (MQ=255)
cTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAAt < 1:577478/80‑1 (MQ=255)
cTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAAt < 2:577477/80‑1 (MQ=255)
cgccgTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGc < 2:577479/81‑1 (MQ=255)
gccgTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGcc > 1:577525/1‑81 (MQ=255)
gccgTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGcc > 2:577543/1‑81 (MQ=255)
cgTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCg > 1:577537/1‑81 (MQ=255)
gTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCg > 1:577542/1‑80 (MQ=255)
gTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGc < 1:577480/81‑1 (MQ=255)
cAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCaa > 2:577545/1‑81 (MQ=255)
cAGACGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGa > 1:577481/1‑81 (MQ=255)
aCGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGc > 1:577538/1‑81 (MQ=255)
aCGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGc < 1:577482/81‑1 (MQ=255)
cGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGc > 1:577527/1‑80 (MQ=255)
cGGATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCg < 1:577483/81‑1 (MQ=255)
ggATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGa < 2:577485/81‑1 (MQ=255)
ggATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGa < 1:577484/81‑1 (MQ=255)
gATTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGaa < 1:577486/81‑1 (MQ=255)
aTTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAAc < 1:577487/81‑1 (MQ=255)
aTTGTCTCGCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAAc > 1:577529/1‑81 (MQ=255)
gCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATa > 2:577530/1‑79 (MQ=255)
gCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATa < 1:577488/79‑1 (MQ=255)
gCTGTCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACa < 1:577489/81‑1 (MQ=255)
tCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGt < 1:577490/79‑1 (MQ=255)
tCACGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGTg > 2:577539/1‑80 (MQ=255)
aCGCAGCTCTCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGTGCaa < 1:577491/81‑1 (MQ=255)
ctctCCAAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGTGCAAACCAAt < 2:577492/81‑1 (MQ=255)
|
AATGTTGCCAGCACCAAATGCCCGGTTTCTGCCGCCGTCAGTGCCAGACGGATTGTCTCGCTGTCACGCAGCTCTCCGAGCAAAATCACATCAGGATCTTCCCGCAATGCGGCCCGCAATCCCGATGCGAACGTCATACAGTGCAAACCAAT > NC_000913/3094407‑3094558
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
