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 |
1,477,935 |
G→A |
73.6% |
E360K (GAA→AAA) |
ydbD → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,477,935 | 0 | G | A | 73.6%
| 82.9
/ 36.5
| 53 | E360K (GAA→AAA) | ydbD | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (4/10); new base A (17/22); total (21/32) |
| Fisher's exact test for biased strand distribution p-value = 3.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.93e-01 |
TCGAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGGAGC > W3110S.gb/1477870‑1478001
|
tCGAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaa < 1:2559304/68‑1 (MQ=255)
tCGAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaa < 1:377031/68‑1 (MQ=255)
tCGAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaa < 1:2010445/68‑1 (MQ=255)
aaaTAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaa < 1:3203301/65‑1 (MQ=255)
aaaTAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAtctc < 1:2389533/71‑1 (MQ=255)
gAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATc < 1:1081998/71‑1 (MQ=255)
tGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt > 1:3136707/1‑70 (MQ=255)
tGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGt > 1:176707/1‑70 (MQ=255)
cgtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc > 1:1849501/1‑71 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:2890289/70‑1 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:3227500/70‑1 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:2617896/70‑1 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:3310133/70‑1 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:3616862/70‑1 (MQ=255)
gtcTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGAc < 1:1118969/70‑1 (MQ=255)
ccTGATTGTGTCGGTCCGTTGAATCTTGCGCTACGTGaaa < 1:2089711/40‑1 (MQ=255)
ccTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaaa < 1:2003739/40‑1 (MQ=255)
ccTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaaa < 1:2991794/40‑1 (MQ=255)
ccTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaaa < 1:946845/40‑1 (MQ=255)
cTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGaaa < 1:685315/39‑1 (MQ=255)
tGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt > 1:730551/1‑40 (MQ=255)
tGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt > 1:1345392/1‑40 (MQ=255)
tGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt > 1:963070/1‑40 (MQ=255)
tGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAAt > 1:780211/1‑40 (MQ=255)
tgtCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAagag < 1:2877533/71‑1 (MQ=255)
tgtCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAagag < 1:481649/71‑1 (MQ=255)
gtCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaaaa > 1:1816121/1‑67 (MQ=255)
gtCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaaaa > 1:3285521/1‑67 (MQ=255)
gtCGGTCCGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGaaaa > 1:2079174/1‑67 (MQ=255)
cGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAagag < 1:1338358/63‑1 (MQ=255)
cGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa > 1:1032315/1‑70 (MQ=255)
cGTTGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGa > 1:2863455/1‑70 (MQ=255)
ttGAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGatat < 1:738104/71‑1 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:3023237/1‑71 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:1060395/1‑71 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:1078143/1‑71 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:2789844/1‑71 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:262157/1‑71 (MQ=255)
gAATCTTGCGCTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGa > 1:1752089/1‑71 (MQ=255)
gcgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAgaga > 1:670713/1‑53 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:2171067/71‑1 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:1424725/71‑1 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:1428829/71‑1 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:2336031/71‑1 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:2376153/71‑1 (MQ=255)
cgcTACGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAg < 1:2796107/71‑1 (MQ=255)
cTACGTAAAAATCTCCATCTGGATATCGTCATGACTCTGGCGaa < 1:1025534/44‑1 (MQ=38)
aCGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGGAGc > 1:649120/1‑71 (MQ=255)
aCGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGGAGc > 1:3444942/1‑71 (MQ=255)
cGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGAt < 1:4098/59‑1 (MQ=255)
cGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGAt < 1:2475149/59‑1 (MQ=255)
cGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGAt < 1:3238668/59‑1 (MQ=255)
cGTAAAAATCTCCCTCTGGATATCGTCATGACTCTGGCG‑AAATAGATTGGGATATGAt < 1:3078555/58‑1 (MQ=38)
|
TCGAAATAATGACGCGAATGAGTCGTCTACCTGATGGTGTCGGTCCGTTGAATCTTGCGCTACGTGAAAATCTCCCTCTGGATATCGTCATGACTCTGGCGAAAAGAGATTGGGATATGATCATTCAGGAGC > W3110S.gb/1477870‑1478001
|
| 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
