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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
833,231 |
T→C |
7.4% |
I563I (ATT→ATC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 833,231 | 0 | T | C | 7.4%
| 150.1
/ 3.4
| 55 | I563I (ATT→ATC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (23/27); new base C (2/2); total (26/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
GTGCGGGGCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGT > minE/833167‑833297
|
gTGCGGGGCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGc < 1:3068470/71‑1 (MQ=255)
cGGGGCTGAACCACTGGTATCACCTCGATATGAACTATCGTTGTCTGATCAACATGCTGATTTTCTGAGGc < 1:3184480/71‑1 (MQ=255)
cGGGGCTGAACCACTGGTAT‑‑CCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtg < 1:3312301/71‑1 (MQ=255)
ggggCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGc < 1:2087285/67‑1 (MQ=255)
gggCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtg > 1:327411/1‑71 (MQ=255)
cTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTgtgt < 1:3901796/71‑1 (MQ=255)
cTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTgtgt < 1:87909/71‑1 (MQ=255)
gAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATATTCTGCGGCtg > 1:2957393/1‑66 (MQ=255)
aaCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCgg > 1:2823613/1‑71 (MQ=255)
aaCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCgg > 1:3377018/1‑71 (MQ=255)
aCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGc < 1:2092011/59‑1 (MQ=255)
aCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt < 1:532157/71‑1 (MQ=255)
aCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt < 1:2039939/71‑1 (MQ=255)
cACTGGTATCACCTCGATATGATCTATCGTGGTCTGATCAACATGCTGAttt < 1:2263478/52‑1 (MQ=255)
cACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGAttt < 1:2944246/52‑1 (MQ=255)
cACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa < 1:2452171/71‑1 (MQ=255)
aCTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:229776/71‑1 (MQ=255)
cTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtgtg < 1:3141028/62‑1 (MQ=255)
aTCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCgg < 1:2167149/52‑1 (MQ=255)
aTCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCggg > 1:3192615/1‑71 (MQ=255)
tCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCgggg > 1:3019126/1‑71 (MQ=255)
cGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt > 1:707151/1‑71 (MQ=255)
gATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt < 1:593856/70‑1 (MQ=255)
gATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTg < 1:2358624/71‑1 (MQ=255)
atatGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtgt < 1:455751/47‑1 (MQ=255)
tGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa > 1:2618477/1‑52 (MQ=255)
tGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGgc < 1:1425439/70‑1 (MQ=255)
gAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCggggg < 1:2117250/60‑1 (MQ=255)
aaCTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGc < 1:3379657/54‑1 (MQ=255)
tCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATg > 1:3229928/1‑71 (MQ=255)
cGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATg > 1:937595/1‑70 (MQ=255)
gTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCgg > 1:1841227/1‑40 (MQ=255)
gTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt > 1:2489336/1‑41 (MQ=255)
gTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGt < 1:3169175/70‑1 (MQ=255)
tGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCg < 1:1027163/38‑1 (MQ=255)
tGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCg < 1:3307607/38‑1 (MQ=255)
gTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCgggg > 1:2546758/1‑48 (MQ=255)
aTCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAg > 1:1017707/1‑69 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCg < 1:235335/40‑1 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGggcgg > 1:2649595/1‑47 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGggcgg > 1:2610281/1‑47 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGggcgg > 1:514187/1‑47 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGggcgg > 1:2196467/1‑47 (MQ=255)
cAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaa > 1:101332/1‑70 (MQ=255)
cAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaa > 1:2285684/1‑70 (MQ=255)
cAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaa > 1:1672617/1‑70 (MQ=255)
aaCATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaaa < 1:2775460/71‑1 (MQ=255)
aCATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaaaa < 1:2876246/71‑1 (MQ=255)
aCATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaaaa < 1:3908201/71‑1 (MQ=255)
cATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGt > 1:14721/1‑57 (MQ=255)
cATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAAc > 1:2136151/1‑71 (MQ=255)
aTGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACt > 1:1388559/1‑71 (MQ=255)
tGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGAAAAACTg > 1:2992050/1‑71 (MQ=255)
tGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGAAAAACTg < 1:2421184/71‑1 (MQ=255)
cTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCg < 1:1008393/71‑1 (MQ=255)
tGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGgc < 1:320456/43‑1 (MQ=255)
gATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGt > 1:3474505/1‑70 (MQ=255)
|
GTGCGGGGCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGT > minE/833167‑833297
|
| 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
