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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,259,765 |
A→G |
21.4% |
F387L (TTC→CTC) |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,259,765 | 0 | A | G | 21.4%
| 75.0
/ 16.4
| 42 | F387L (TTC→CTC) | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base A (11/22); new base G (4/5); total (15/27) |
| Fisher's exact test for biased strand distribution p-value = 6.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTC > minE/1259699‑1259835
|
cAGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCa < 1:1028929/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:4042393/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:5161683/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:2435816/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:1930038/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:1665503/71‑1 (MQ=255)
aGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCaa < 1:1502292/71‑1 (MQ=255)
aCATTTCCGGCAGCACGCCGCCAACACGCGTCGGTTTGCCACCGTTGGAGTAATGATAAGAGAAACCaaaa < 1:5297226/71‑1 (MQ=255)
aCATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAAcc < 1:2691006/67‑1 (MQ=255)
cATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAAc < 1:5537514/71‑1 (MQ=255)
gcaCGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGgt > 1:3502688/1‑71 (MQ=255)
gccgccAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTAc > 1:5665775/1‑71 (MQ=255)
ccgccAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTAcc < 1:1749692/71‑1 (MQ=255)
cgccAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCa < 1:1386230/71‑1 (MQ=255)
cgccAACACGCGGCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCa < 1:5047619/71‑1 (MQ=255)
cAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATc > 1:2102408/1‑71 (MQ=255)
aaCACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCt > 1:109426/1‑71 (MQ=255)
cgcgTCGGGTTGCCACCGTTGGAGTAATGAAAAGAGAAACCAAAAccgccg > 1:2359074/1‑51 (MQ=255)
cgTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCt < 1:1088197/70‑1 (MQ=255)
cgTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTa < 1:1946550/71‑1 (MQ=255)
tggggTTACCACCATTGGCAAAATGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCaa > 1:3184431/3‑70 (MQ=255)
tCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTa < 1:742430/69‑1 (MQ=255)
gggTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTa > 1:4083805/1‑54 (MQ=255)
gTTACCACCATTGGCAAAATGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACAttg > 1:1004409/1‑69 (MQ=255)
ttaccaccaTTGGCAAAATGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATtgc > 1:2755281/4‑71 (MQ=255)
ttGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATcgc > 1:4433378/1‑71 (MQ=255)
taccaccaTTGGCAAAATGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATtgc > 1:239651/3‑70 (MQ=255)
ccaccaTTGGCAAAATGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGcc < 1:5319517/50‑1 (MQ=255)
ggAGTAATTATAAGAGAAACCAAAACCGCCGCCCGGTGTACCa < 1:4634668/43‑1 (MQ=255)
gAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCAc < 1:2844667/71‑1 (MQ=255)
gAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCAc < 1:3032831/71‑1 (MQ=255)
aGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCAc > 1:4600250/1‑70 (MQ=255)
aaaTGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGc < 1:3618007/62‑1 (MQ=255)
aaaTGGTAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGAcga < 1:419678/69‑3 (MQ=255)
tGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCa < 1:1196808/36‑1 (MQ=255)
gtAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATcc < 1:4525914/70‑1 (MQ=255)
gtAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATcc < 1:138006/70‑1 (MQ=255)
tAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATc > 1:3898621/1‑69 (MQ=255)
gagaAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGc < 1:1149535/63‑1 (MQ=255)
gagaAACCAAAACCGCCGCACGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGc < 1:248870/63‑1 (MQ=255)
gaAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACAt > 1:3003638/1‑42 (MQ=255)
gaAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGtt > 1:2201941/1‑71 (MQ=255)
aaCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGc < 1:3615561/50‑1 (MQ=255)
aaCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCa < 1:908069/60‑1 (MQ=255)
aaCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTc < 1:2122035/71‑1 (MQ=255)
|
CAGACATTTCCGGCAGCACGCCGCCAACACGCGTCGGGTTGCCACCGTTGGAGTAATGATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTC > minE/1259699‑1259835
|
| 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
