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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,169,967 |
(T)7→8 |
intergenic (‑10/+159) |
yegZ ← / ← yegR |
ECK2080:JW5886:b2083; hypothetical protein fragment/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,169,960 | 1 | . | T | 87.0%
| 53.8
/ 5.0
| 23 | intergenic (‑3/+166) | yegZ/yegR | ECK2080:JW5886:b2083; hypothetical protein fragment/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base T (3/17); total (3/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01 |
CGGTGTTTCCGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑TTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGATAGAATCCTC > W3110S.gb/2169892‑2170024
|
cGGTGTTTCCGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tt < 1:2913509/71‑1 (MQ=255)
cGGTGTTTCCGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tt < 1:2761784/71‑1 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:3252477/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:3935762/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:3635649/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:2286137/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:3279851/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:2574222/70‑3 (MQ=255)
ccGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:3392163/70‑3 (MQ=255)
atatCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGc < 1:2465469/71‑1 (MQ=255)
atacCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGc < 1:348346/71‑1 (MQ=255)
cGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATctct < 1:3222734/71‑1 (MQ=255)
cGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGACCTATctct < 1:2349417/71‑1 (MQ=255)
gTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tt < 1:4072324/40‑1 (MQ=255)
cAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑tttttttta < 1:2422052/42‑3 (MQ=255)
ggCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTc < 1:2278314/71‑1 (MQ=255)
gCTGATGGAGAACTCTGCTACATGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTc < 1:2103438/70‑1 (MQ=255)
gCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTAtctc < 1:1089822/56‑1 (MQ=39)
gCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTc < 1:2301973/70‑1 (MQ=255)
gCTGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTc < 1:2297405/70‑1 (MQ=255)
tGATGGAGAACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTc < 1:2371890/68‑1 (MQ=255)
gaACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACca > 1:1130059/1‑70 (MQ=255)
gaACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACca > 1:2932385/1‑70 (MQ=255)
gaACTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAAACGTCTTCCATTGACca > 1:1223750/1‑70 (MQ=255)
aaCTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:3157136/71‑1 (MQ=255)
aaCTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:3284782/71‑1 (MQ=255)
aaCTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:1903071/71‑1 (MQ=255)
aaCTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:1897885/71‑1 (MQ=255)
aaCTCTGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:4012355/71‑1 (MQ=255)
ctctGCTACACGGGCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACcaca < 1:2558095/69‑1 (MQ=255)
tGCTACACGGGCTTA‑TTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGa < 1:2727927/69‑1 (MQ=255)
tGCTACACGGGCTTA‑TTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGa < 1:2047789/69‑1 (MQ=255)
tGCTACACGGGCTTA‑TTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGa < 1:3609492/69‑1 (MQ=255)
ggCTTATTTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGATAGAAtcctc < 1:3815806/71‑1 (MQ=255)
|
CGGTGTTTCCGTGTAAATATCTGCCCGACCGGTAGCCAGGCTGATGGAGAACTCTGCTACACGGGCTTA‑TTTTTTTATGCATAAGCCCTATCTCTGGTAACCGTCTTCCATTGACCACATCGATAGAATCCTC > W3110S.gb/2169892‑2170024
|
| 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
