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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,775,080 |
T→C |
62.9% |
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 | 62.9%
| 54.5
/ 63.8
| 62 | F285F (TTT→TTC) | ydiN | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base T (5/18); new base C (17/22); total (22/40) |
| Fisher's exact test for biased strand distribution p-value = 1.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.38e-01 |
TGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAA > W3110S.gb/1775020‑1775145
|
tgtCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTg < 1:2628881/68‑1 (MQ=255)
tgtCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTg < 1:316845/68‑1 (MQ=255)
ttagCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGcaacaa < 1:575571/67‑1 (MQ=255)
ttGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAAt < 1:315190/70‑1 (MQ=255)
ttGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAAt < 1:2453133/70‑1 (MQ=255)
gCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATaa < 1:2891280/70‑1 (MQ=255)
gCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATaa < 1:545584/70‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGcaacaa < 1:1019559/61‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGcaacaa < 1:2946720/61‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGcaacaa < 1:2875472/61‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGcaacaa < 1:2528973/61‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGcaacaa < 1:1077711/61‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACagcagc < 1:2829033/71‑1 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACagcagc > 1:73693/1‑71 (MQ=255)
ctactGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACagcagc < 1:3359442/71‑1 (MQ=255)
actGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATa > 1:1498527/1‑61 (MQ=255)
actGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCaa > 1:2216894/1‑42 (MQ=255)
actGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATaa > 1:288804/1‑62 (MQ=255)
ctGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAt > 1:3675817/1‑71 (MQ=255)
aaaaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAActc > 1:794664/1‑41 (MQ=255)
aaaaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAActc > 1:405310/1‑41 (MQ=255)
aaaaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:2027431/69‑1 (MQ=255)
aaaaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:1650988/69‑1 (MQ=255)
aaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTTGCAACAATAACAGCAGCCATTATCt < 1:1629176/71‑1 (MQ=255)
aaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCt < 1:6467/71‑1 (MQ=255)
aaaaaTGGTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCt < 1:3201797/71‑1 (MQ=255)
ggTCCGGCCCATCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCt < 1:2577405/65‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:2153422/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:2149247/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:1721801/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:2850391/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:3700146/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:2815976/50‑1 (MQ=255)
tCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:3537718/50‑1 (MQ=255)
tCTGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCAtt < 1:334523/50‑1 (MQ=255)
tGGGCTAATGTATTCAACTCTGCACTGGCAACAATaa > 1:1521317/1‑37 (MQ=255)
tGGGCTAATGTATTCAACTCTGCACTGGCAACAATa > 1:1464864/1‑36 (MQ=255)
tGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACt > 1:2992422/1‑71 (MQ=255)
tGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACt > 1:2287028/1‑71 (MQ=255)
tGGGCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACt > 1:214261/1‑71 (MQ=255)
agggCTAATGTATTCAACTCTGCACTGGCAACAATaa > 1:1197468/2‑37 (MQ=38)
ggCTAATGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTgg < 1:2805637/71‑1 (MQ=255)
aaTGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTa > 1:115113/1‑43 (MQ=255)
aaTGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATc > 1:2799939/1‑45 (MQ=255)
aaTGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATc > 1:1080418/1‑45 (MQ=255)
aaTGTACTCAACTCTGCACTGGCAACAATAACAGCCGCCAtt < 1:3055688/42‑1 (MQ=37)
aTGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGc < 1:2284257/71‑1 (MQ=255)
tGTATTTAACTCTGCACTGGCAACAATAACagcagc < 1:2734866/36‑1 (MQ=255)
tGTATTTAACTCTGCACTGGCAACAATAACagcagc < 1:1429207/36‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:1051884/37‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:2521815/37‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:1484565/37‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGcc < 1:1422639/37‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCt < 1:3133355/44‑1 (MQ=255)
tGTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCt < 1:822292/44‑1 (MQ=255)
gTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCaa > 1:2830153/1‑71 (MQ=255)
gTATTCAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCaa > 1:468684/1‑71 (MQ=255)
tATTTAACTCTGCACTGGCAATAATAACAGCAGCCa > 1:1297513/1‑36 (MQ=255)
tATTTAACTCTGCACTGGCAACAATAACAGCAGcc > 1:903345/1‑35 (MQ=255)
tATTTAACTCTGCACTGGCAACAATAACAGCAGCCa > 1:1328206/1‑36 (MQ=255)
tATTTAACTCTGCACTGGCAACAATAACAGCAGCCa > 1:1075759/1‑36 (MQ=255)
tATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTtc < 1:842210/55‑1 (MQ=255)
|
TGTCTTTATTTTTGCCGCACTACTGAAAAAAATGGTCCGGCCCATCTGGGCTAATGTATTTAACTCTGCACTGGCAACAATAACAGCAGCCATTATCTACCTGTACCCTTCTCCACTGGTGTGCAA > W3110S.gb/1775020‑1775145
|
| 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
