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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
464,946 |
A→G |
10.0% |
F531L (TTC→CTC) |
ybaE ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 464,946 | 0 | A | G | 10.0%
| 129.9
/ 7.3
| 50 | F531L (TTC→CTC) | ybaE | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (24/21); new base G (2/3); total (26/24) |
| Fisher's exact test for biased strand distribution p-value = 6.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
GCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTTTC > W3110S.gb/464886‑465015
|
gcgGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGaa > 1:3948246/1‑61 (MQ=255)
gtgtCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGt < 1:1448725/67‑1 (MQ=255)
gtCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGaa > 1:4250924/1‑56 (MQ=255)
aGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCg > 1:2191488/1‑70 (MQ=255)
tCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCAt > 1:3427904/1‑71 (MQ=255)
tCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCAt > 1:2215012/1‑71 (MQ=255)
cGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATc > 1:1553797/1‑71 (MQ=255)
gCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGGGGCGTCAGCGTCGCATc > 1:170120/1‑70 (MQ=255)
acacCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACa > 1:3018934/1‑49 (MQ=255)
acacCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACa > 1:1840639/1‑49 (MQ=255)
acacCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGt < 1:161303/71‑1 (MQ=255)
acCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCa > 1:4100418/1‑71 (MQ=255)
acCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCa > 1:4062482/1‑71 (MQ=255)
ccGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGaa > 1:127906/1‑44 (MQ=255)
aCGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACt < 1:1392153/70‑1 (MQ=255)
aCGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACt < 1:4147932/70‑1 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGt > 1:4132945/1‑61 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGt < 1:1042891/61‑1 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTgg > 1:3778025/1‑71 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTgg > 1:1567176/1‑71 (MQ=255)
cGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTgg > 1:3529347/1‑71 (MQ=255)
ccGGGAGGGGCACTAATGCGATAGTGATAGTTGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCt < 1:2771105/71‑1 (MQ=255)
ccGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGc > 1:2440603/1‑70 (MQ=255)
ccGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGc > 1:3543150/1‑70 (MQ=255)
ccGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGGCATTAACTGGc > 1:3642827/1‑70 (MQ=255)
cGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATc > 1:865471/1‑55 (MQ=255)
cGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCt > 1:2928240/1‑70 (MQ=255)
gggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaa < 1:1191473/71‑1 (MQ=255)
gggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaa < 1:903520/71‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:2168975/71‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:1391227/71‑1 (MQ=255)
ggAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaa > 1:2279010/1‑70 (MQ=255)
cACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaa < 1:982544/64‑1 (MQ=255)
aCTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTaaaaa > 1:1368337/1‑65 (MQ=255)
tAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCa < 1:1538343/41‑1 (MQ=255)
aaTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCAtt < 1:4174503/49‑1 (MQ=255)
aaTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCAtt < 1:3116040/49‑1 (MQ=255)
aTGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAg > 1:4556739/1‑71 (MQ=255)
gCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACt < 1:461070/50‑1 (MQ=255)
gCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCtt < 1:1097777/65‑1 (MQ=255)
cGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCa > 1:3597203/1‑67 (MQ=255)
atagtgatagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCAt < 1:2615810/71‑1 (MQ=255)
atagtgatagtTGAACAGCGGCGGCAGCGTCGCATCTg < 1:4047125/38‑1 (MQ=255)
agtgatagtTGAACAGCGGCGTCAGCGTCGCATCTGTCAtt > 1:2339126/1‑41 (MQ=255)
gtgatagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTa > 1:3739687/1‑70 (MQ=255)
tgatagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTc < 1:2142985/60‑1 (MQ=255)
gatagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTaa > 1:3831331/1‑69 (MQ=255)
atagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTaaa < 1:1969776/69‑1 (MQ=255)
atagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATc < 1:4346635/71‑1 (MQ=255)
tagtTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCg > 1:1822023/1‑71 (MQ=255)
ttGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACt < 1:1054382/37‑1 (MQ=255)
tGAGCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGtt < 1:100247/70‑1 (MQ=255)
gAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGttt < 1:1167103/70‑1 (MQ=255)
aaCAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTttc > 1:169419/1‑71 (MQ=255)
|
GCGGTGTCAGTCGCACACCGTTCACGCCGGGAGGGGCACTAATGCGATAGTGATAGTTGAACAGCGGCGTCAGCGTCGCATCTGTCATTAACTGGCTAAAAACCGCTTTCAGGGCATTAAATCGGTTTTC > W3110S.gb/464886‑465015
|
| 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
