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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,023,649 |
G→A |
16.0% |
L219L (CTC→CTT) |
yccS ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,023,649 | 0 | G | A | 16.0%
| 125.3
/ 15.0
| 50 | L219L (CTC→CTT) | yccS | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (18/24); new base A (5/3); total (23/27) |
| Fisher's exact test for biased strand distribution p-value = 4.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01 |
AGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCGGT > W3110S.gb/1023582‑1023712
|
aGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGt > 1:673848/1‑71 (MQ=255)
ataatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTc < 1:2892790/70‑1 (MQ=255)
ataatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTc < 1:4596887/70‑1 (MQ=255)
ataatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCg < 1:3678278/71‑1 (MQ=255)
ataatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCg > 1:2316233/1‑71 (MQ=255)
ataatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGAGGGTCAGCAGCGAGAGTTTc < 1:214137/70‑1 (MQ=255)
taatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGttt < 1:4440403/68‑1 (MQ=255)
taatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGttt < 1:2074126/68‑1 (MQ=255)
aatGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTc > 1:1781356/1‑71 (MQ=255)
gCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAAAGTTTCGTCTGa > 1:1776300/1‑71 (MQ=255)
cAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGGAGCGAAAGTTTCGTCTGAt > 1:3203838/1‑71 (MQ=255)
cAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGa < 1:1814660/70‑1 (MQ=255)
cAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGAt < 1:4109800/71‑1 (MQ=255)
cAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGAt > 1:4178581/1‑71 (MQ=255)
gcgTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCg > 1:1626087/1‑54 (MQ=255)
ttCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTc < 1:116138/50‑1 (MQ=255)
tCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAAAGTTTCGTCTGATTCAATGTCGCCAt > 1:4504540/1‑69 (MQ=255)
tCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAAAGTTTCGTCTGATTCAATGTCGCCAt > 1:555837/1‑69 (MQ=255)
ccccGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCg > 1:2622275/1‑49 (MQ=255)
cGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTTAATGTAGCCATcag > 1:3911930/1‑68 (MQ=255)
cGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATcag > 1:3682699/1‑68 (MQ=255)
ttGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTc > 1:4551416/1‑43 (MQ=255)
ttGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGt > 1:2055357/1‑45 (MQ=255)
aCCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGt < 1:161767/71‑1 (MQ=255)
ccACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGtt < 1:3807926/71‑1 (MQ=255)
ccACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGt < 1:9777/70‑1 (MQ=255)
cACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTc < 1:2913916/47‑1 (MQ=255)
aTCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGc > 1:1879979/1‑69 (MQ=255)
aTCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCga < 1:750954/71‑1 (MQ=255)
tCGCCACGTAAGCTGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCgag < 1:4381982/71‑1 (MQ=255)
gCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCg < 1:4441897/67‑1 (MQ=255)
aCGTAAGCGGGTCAGCAGCGAGAGTTTCGGCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCa < 1:1788600/71‑1 (MQ=255)
cGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATc < 1:3370915/48‑1 (MQ=255)
gTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCaa < 1:2136613/70‑1 (MQ=255)
gTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCaa < 1:418825/70‑1 (MQ=255)
gTAAGCGGGTCAGCAGCGAAAGTTTCGTCTGATTCAAt < 1:2512384/38‑1 (MQ=255)
tAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCaa > 1:2269900/1‑36 (MQ=255)
tAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAAt > 1:67223/1‑71 (MQ=255)
aaGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCaa > 1:4351709/1‑35 (MQ=255)
aGCGGGTCAGCAGCGAAAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCg < 1:4020053/71‑1 (MQ=255)
gCGGGTCAGCAGCGAAAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGt < 1:1029643/71‑1 (MQ=255)
gggTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGcc > 1:818480/1‑38 (MQ=255)
gggTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCa > 1:1814980/1‑39 (MQ=255)
tCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATcag < 1:2722667/40‑1 (MQ=255)
tCAGCAGCGAAAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGc > 1:1481451/1‑71 (MQ=255)
cagcagCGAGAGTTTCGTCTGATTCAATGTCGCCATcagca > 1:210040/1‑41 (MQ=255)
agcagcGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCgg < 1:1397818/71‑1 (MQ=255)
gcagcGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCGGt < 1:1730276/71‑1 (MQ=255)
gcaccGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCGGt < 1:2776377/71‑1 (MQ=255)
cagcGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCGGt > 1:3800214/1‑70 (MQ=255)
|
AGTAATAATGCAGCGTGCGACGCGTTCCCCGTTGACCACGATCGCCACGTAAGCGGGTCAGCAGCGAGAGTTTCGTCTGATTCAATGTCGCCATCAGCAGACCGTTGGCGAGAGCCAAATCGTACAGCGGT > W3110S.gb/1023582‑1023712
|
| 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
