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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,738,791 |
G→A |
59.6% |
C340C (TGC→TGT) |
lepA ← |
GTP binding membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,738,791 | 0 | G | A | 59.6%
| 25.2
/ 54.6
| 47 | C340C (TGC→TGT) | lepA | GTP binding membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (4/15); new base A (5/23); total (9/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGATCCAGATCGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTC > minE/1738722‑1738854
|
cagatccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCg < 1:1386624/70‑1 (MQ=255)
gatccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAg < 1:987585/71‑1 (MQ=255)
gatccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAg < 1:2879695/71‑1 (MQ=255)
gatccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAg < 1:3100228/71‑1 (MQ=255)
atccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGc > 1:751354/1‑71 (MQ=255)
atccagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGc > 1:254531/1‑71 (MQ=255)
cagatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGa < 1:3172500/71‑1 (MQ=255)
agatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGaa < 1:2164931/71‑1 (MQ=255)
gatcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGaaa < 1:698903/71‑1 (MQ=255)
atcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAAc < 1:3167543/71‑1 (MQ=255)
tcGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAAcc < 1:3031611/71‑1 (MQ=255)
gTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCaa < 1:1033688/71‑1 (MQ=255)
aCGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGccc < 1:3184090/70‑1 (MQ=255)
gTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAgc < 1:1777260/71‑1 (MQ=255)
ttCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCa < 1:724521/61‑1 (MQ=255)
ttCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCa < 1:696135/61‑1 (MQ=255)
ttCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCa < 1:3262663/61‑1 (MQ=255)
ttCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCa < 1:1431088/61‑1 (MQ=255)
ttCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCa < 1:859341/61‑1 (MQ=255)
cAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAgcgcgc < 1:1589788/71‑1 (MQ=255)
aGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAgcgcg < 1:2080742/69‑1 (MQ=255)
aGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCt < 1:2999730/71‑1 (MQ=255)
aCGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCTGCAGCGGAAACCAAAGCCCAGCGCGCTg > 1:154783/1‑70 (MQ=255)
gTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGTAAACCAAAGcc < 1:2902098/58‑1 (MQ=255)
gTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGcc < 1:2781404/58‑1 (MQ=255)
gTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAg > 1:3173840/1‑71 (MQ=255)
cTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCttt < 1:3308757/71‑1 (MQ=255)
cTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCtt < 1:3022965/70‑1 (MQ=255)
gatgatCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTcc < 1:2827335/70‑1 (MQ=255)
gatgatCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTc < 1:3031562/69‑1 (MQ=255)
gatgatCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg < 1:7762/71‑1 (MQ=255)
gatgatCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCg > 1:2228454/1‑71 (MQ=255)
atgatCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCgg < 1:2859492/71‑1 (MQ=255)
atCTCCATGTGCAGCATGCCGAGGAAGCCACAGCGGAAAcc < 1:654564/41‑1 (MQ=37)
atCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAAcc < 1:2781730/41‑1 (MQ=255)
atCTCCATGTGCAGCAGGCCGAGGAAGCCACAGCGGAAAcc < 1:3513699/41‑1 (MQ=255)
ccATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAg > 1:1390548/1‑46 (MQ=255)
cATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGc < 1:3561832/64‑1 (MQ=255)
aTGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGaa < 1:1803710/71‑1 (MQ=255)
tgtgCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGaa > 1:1448838/1‑70 (MQ=255)
tgCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACa < 1:2582610/70‑1 (MQ=255)
tgCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCAAGCGCGCTGGAGCTTTCCGGCTCATAGAACa < 1:2953186/70‑1 (MQ=255)
cagcagGCCGAGGAAGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTg < 1:1991650/71‑1 (MQ=255)
ggCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCa < 1:2069787/71‑1 (MQ=255)
ggCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCa < 1:3151291/71‑1 (MQ=255)
cGAGGCAGCCACAGCGGAACCCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGc > 1:1910420/1‑67 (MQ=255)
ggAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTc < 1:2331631/71‑1 (MQ=255)
aaGCCACAGCGGAAACCAAAGCCCAGCGCGCTGGa > 1:1378041/1‑35 (MQ=255)
|
CAGATCCAGATCGTATTCACGTTCCAGACGTTCCTGGATGATCTCCATGTGCAGCAGGCCGAGGAAGCCGCAGCGGAAACCAAAGCCCAGCGCGCTGGAGCTTTCCGGCTCATAGAACAGTGAGGCATCGTTC > minE/1738722‑1738854
|
| 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
