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 |
3,360,083 |
T→C |
27.7% |
F344S (TTC→TCC) |
gltD → |
glutamate synthase, 4Fe‑4S protein, small subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,360,083 | 0 | T | C | 27.7%
| 69.9
/ 32.9
| 47 | F344S (TTC→TCC) | gltD | glutamate synthase, 4Fe‑4S protein, small subunit |
| Reads supporting (aligned to +/- strand): ref base T (20/14); new base C (6/7); total (26/21) |
| Fisher's exact test for biased strand distribution p-value = 5.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01 |
ATGAAGAGAACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTAAAAAT > W3110S.gb/3360014‑3360143
|
atgaAGAGAACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTc < 1:686703/71‑1 (MQ=255)
tgaAGAGAACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTc < 1:453384/70‑1 (MQ=255)
gagaACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGt < 1:835677/71‑1 (MQ=255)
gaACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTc < 1:3852132/70‑1 (MQ=255)
gggTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTg > 1:3098244/1‑70 (MQ=255)
ggTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTggg < 1:1252437/71‑1 (MQ=255)
ttCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATCCAACGTc < 1:3002026/58‑1 (MQ=255)
ccgccgCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTc < 1:882197/49‑1 (MQ=255)
ccgccgCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTg < 1:1669437/71‑1 (MQ=255)
ccgcGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCATCCg > 1:339044/1‑58 (MQ=255)
cgcgAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGt > 1:2610306/1‑71 (MQ=255)
cgcgAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGt < 1:2415270/71‑1 (MQ=255)
cgAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGa < 1:2836503/71‑1 (MQ=255)
gTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATCCa < 1:913156/40‑1 (MQ=255)
tGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGt < 1:1424354/71‑1 (MQ=255)
tGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGt < 1:1753856/71‑1 (MQ=255)
aaaaaCTCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGCTATTGAAGTGAACGGTaa > 1:6294/1‑71 (MQ=255)
aaaaaCGCGCGGGAAGAAGGCGTATAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTaa > 1:3821765/1‑71 (MQ=255)
aaaaaCGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCg > 1:4506880/1‑48 (MQ=255)
aaaaaCGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTaa > 1:4402941/1‑71 (MQ=255)
aaaaaCGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTaa > 1:2323809/1‑71 (MQ=255)
aaaCGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTg < 1:959737/61‑1 (MQ=255)
aaCGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTg < 1:2475609/60‑1 (MQ=255)
cgcgcgGGAAGAAGGCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGc > 1:1079185/1‑70 (MQ=255)
cgcgcgGGAAGAAGGCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCa < 1:4444843/71‑1 (MQ=255)
gggAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTc < 1:619876/71‑1 (MQ=255)
agaagGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCa < 1:3134597/62‑1 (MQ=255)
agaagGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcg > 1:3178033/1‑71 (MQ=255)
gaagGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcgg > 1:4476900/1‑71 (MQ=255)
aagGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcggc > 1:2325415/1‑71 (MQ=255)
ggCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGa < 1:2660904/41‑1 (MQ=255)
ggCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcggcg > 1:3448540/1‑70 (MQ=255)
ggCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcggcg > 1:192274/1‑70 (MQ=255)
ggCGTAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcggcg > 1:3591955/1‑70 (MQ=255)
cGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGaa > 1:2882987/1‑45 (MQ=255)
cGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTa < 1:554496/70‑1 (MQ=255)
tAGAGTTCAAATCCAACGTCCAGCCGCTGGGTATTGa < 1:565514/37‑1 (MQ=255)
agagTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTaaaaa > 1:802219/1‑71 (MQ=255)
gagTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgc > 1:2449265/1‑60 (MQ=255)
gagTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTaaaaa > 1:1954456/1‑70 (MQ=255)
gagTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTaaaa > 1:2765519/1‑69 (MQ=255)
gagTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTAAAAAt > 1:4477996/1‑71 (MQ=255)
gagTTCAAATCCAACGTCCAGCCGCTGGGTATTGaa > 1:2993273/1‑36 (MQ=255)
cAAATTCCACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAgcgg > 1:3622880/1‑57 (MQ=255)
cAAATCCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCa > 1:646268/1‑53 (MQ=255)
aaaTTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTaa > 1:2337992/1‑41 (MQ=255)
aaaTTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTaa > 1:1031198/1‑41 (MQ=255)
|
ATGAAGAGAACATGCCGGGTTCCCGCCGCGAAGTGAAAAACGCGCGGGAAGAAGGCGTAGAGTTCAAATTCAACGTCCAGCCGCTGGGTATTGAAGTGAACGGTAACGGCAAAGTCAGCGGCGTAAAAAT > W3110S.gb/3360014‑3360143
|
| 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
