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 |
1,775,080 |
T→C |
F285F (TTT→TTC) |
ydiN → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,775,080 | 0 | T | C | 83.0%
| 113.3
/ 15.9
| 47 | F285F (TTT→TTC) | ydiN | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base T (5/3); new base C (22/17); total (27/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01 |
GGTCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAT > W3110S.gb/1775014‑1775146
|
ggTCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAAc < 1:1943822/70‑1 (MQ=255)
gTCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAActc < 1:3665931/71‑1 (MQ=255)
gTCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAActc < 1:1876307/71‑1 (MQ=255)
tCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAActc < 1:513422/70‑1 (MQ=255)
cTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTg > 1:625865/1‑71 (MQ=255)
cTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTg > 1:3451953/1‑71 (MQ=255)
tttATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAAct < 1:801888/61‑1 (MQ=255)
tttATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAAct < 1:1556211/61‑1 (MQ=255)
tttATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAAct < 1:3798748/61‑1 (MQ=255)
tttATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAAct < 1:2263384/61‑1 (MQ=255)
tATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAActc > 1:2489956/1‑60 (MQ=255)
ttGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAAt < 1:991668/70‑1 (MQ=255)
ttGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAAt < 1:1567851/70‑1 (MQ=255)
actGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCa > 1:2739582/1‑71 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:3317862/69‑1 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:1543256/69‑1 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:3422134/69‑1 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:2890052/69‑1 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:1781194/69‑1 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAt > 1:3342754/1‑71 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAt > 1:3403821/1‑71 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAt > 1:377374/1‑71 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAt > 1:2831349/1‑71 (MQ=255)
tGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAAt < 1:1027508/58‑1 (MQ=255)
tGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAAt < 1:2522605/58‑1 (MQ=255)
tGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:2792483/68‑1 (MQ=255)
gAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaa > 1:272628/1‑53 (MQ=255)
gAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaa > 1:1656232/1‑53 (MQ=255)
gAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaa > 1:2511041/1‑53 (MQ=255)
gAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaa > 1:2227435/1‑53 (MQ=255)
gAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaa > 1:2055966/1‑53 (MQ=255)
cATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTtctc < 1:1101774/71‑1 (MQ=255)
tGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTAt > 1:3166325/1‑50 (MQ=255)
tGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTAt > 1:2941588/1‑50 (MQ=255)
tGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTAt > 1:1941421/1‑50 (MQ=255)
tGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTAt > 1:469675/1‑50 (MQ=255)
tGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTAt > 1:1591909/1‑50 (MQ=255)
aTGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGc < 1:3729639/71‑1 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:2944135/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:3538000/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:2757670/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:2654051/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:2600943/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:3954429/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:1602805/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:1971090/1‑71 (MQ=255)
tATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAt > 1:2468585/1‑71 (MQ=255)
|
GGTCTGTGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAAT > W3110S.gb/1775014‑1775146
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
