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 |
4,249,681 |
A→C |
15.3% |
F111V (TTC→GTC) |
malE ← |
maltose transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,249,681 | 0 | A | C | 15.3%
| 77.8
/ 17.1
| 46 | F111V (TTC→GTC) | malE | maltose transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (20/19); new base C (2/5); total (22/24) |
| Fisher's exact test for biased strand distribution p-value = 4.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.58e-01 |
GGTAAGCAATCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCGGTCGTG > W3110S.gb/4249615‑4249744
|
ggTAAGCAATCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCt < 1:3986661/71‑1 (MQ=255)
aaGCAATCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGACCGCttt < 1:3605787/70‑1 (MQ=255)
aaTCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCg < 1:3365244/71‑1 (MQ=255)
aTCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCt < 1:3749334/63‑1 (MQ=255)
aTCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCt < 1:2387690/63‑1 (MQ=255)
cAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCttt > 1:2442645/1‑63 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGACCGCtt < 1:786528/61‑1 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCgg > 1:2989492/1‑68 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGt > 1:3307987/1‑71 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGt < 1:3046257/71‑1 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGt < 1:283391/71‑1 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGt > 1:1043622/1‑71 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGATTTGTCCGGGGt > 1:3362649/1‑71 (MQ=255)
aGCTTGCCGTTGTAACGTACGGCATCCAAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGt > 1:2534876/1‑71 (MQ=255)
gCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGAtt < 1:2086104/70‑1 (MQ=255)
ccGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGACCGCTTTGTCCGGGGTGAttt < 1:2518369/70‑1 (MQ=255)
gTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAg > 1:2507356/1‑71 (MQ=255)
ttGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTc < 1:1521743/56‑1 (MQ=255)
gTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCATcc < 1:1576283/70‑1 (MQ=255)
gTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGcc < 1:4244461/70‑1 (MQ=255)
tAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCa < 1:476636/70‑1 (MQ=255)
aCGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGACCGCTTTGTCCGGGGTGATTTCAGCCAAc < 1:3862153/70‑1 (MQ=255)
cGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCttt > 1:4361963/1‑43 (MQ=255)
cGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTcc > 1:3764504/1‑47 (MQ=255)
gCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGAt < 1:2629143/53‑1 (MQ=255)
cccAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCgg > 1:3915867/1‑43 (MQ=255)
ccAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGa > 1:786125/1‑66 (MQ=255)
cAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGc > 1:4505284/1‑71 (MQ=255)
aGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGAt < 1:3540306/46‑1 (MQ=255)
ggTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACa < 1:1121212/56‑1 (MQ=255)
ggTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCg > 1:595304/1‑70 (MQ=255)
ggTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGt < 1:1590992/71‑1 (MQ=255)
tAAACGGATACAGCTTGTCCTGGACCGCTTTGTCCggg > 1:4583625/1‑38 (MQ=255)
aaaCGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTc > 1:3041084/1‑45 (MQ=255)
ggATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGccac > 1:1505502/1‑70 (MQ=255)
tACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAAc < 1:3915642/45‑1 (MQ=255)
tACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCaaa < 1:4517381/71‑1 (MQ=255)
tACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCaaa < 1:1478433/71‑1 (MQ=255)
tACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCaa > 1:936939/1‑70 (MQ=255)
aCAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTa < 1:3921809/61‑1 (MQ=255)
cAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAAc > 1:2406762/1‑43 (MQ=255)
cAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAg > 1:2853195/1‑45 (MQ=255)
gCTTGTCCTGGACCGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCgg > 1:549229/1‑71 (MQ=255)
cTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCGGt > 1:2443277/1‑71 (MQ=255)
tCCTGGACCGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCGGTCgtg < 1:3145597/71‑1 (MQ=255)
ggAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCg > 1:746100/1‑61 (MQ=255)
aCGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCg > 1:3812993/1‑44 (MQ=255)
|
GGTAAGCAATCAGCTTGCCGTTGTAACGTACGGCATCCCAGGTAAACGGATACAGCTTGTCCTGGAACGCTTTGTCCGGGGTGATTTCAGCCAACAGGCCAGATTGAGCGTAGCCACCAAAGCGGTCGTG > W3110S.gb/4249615‑4249744
|
| 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
