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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,933,927 |
G→C |
39.2% |
L172L (CTC→CTG) |
lysS ← |
lysine tRNA synthetase, constitutive |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,933,927 | 0 | G | C | 39.2%
| 29.0
/ 45.0
| 51 | L172L (CTC→CTG) | lysS | lysine tRNA synthetase, constitutive |
| Reads supporting (aligned to +/- strand): ref base G (24/7); new base C (6/14); total (30/21) |
| Fisher's exact test for biased strand distribution p-value = 1.25e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCA > minE/1933867‑1933994
|
agagagGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAAc < 1:2561350/68‑1 (MQ=255)
gagGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTg > 1:183964/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:2383833/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:1219888/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:1321040/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:210035/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:1563396/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg > 1:3270033/1‑69 (MQ=255)
tttAAAGGTGTTGCGGGATTAATCGTTAGAGATGAGATCcaga > 1:2255195/1‑43 (MQ=37)
aaGGGGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGAt < 1:3289429/67‑1 (MQ=255)
aGGTGTTGCGGGATTCATCGTTGGAGATGATATCGAGATAACGCTGACGATAGCGCGCTTCCTGAt < 1:2146445/66‑1 (MQ=255)
gCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGc > 1:3205060/1‑68 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:1595540/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:3294517/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:2073478/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:2077465/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:2430051/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:934319/57‑1 (MQ=255)
gCGGGATTCATCGTTAGAGATGAGATCCAGATAACGCTGACGATAGCGCGCTTCCTg < 1:2378082/57‑1 (MQ=255)
ttCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGaa > 1:468157/1‑69 (MQ=255)
ttCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGaa > 1:114207/1‑69 (MQ=255)
ttCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGaa > 1:1111002/1‑69 (MQ=255)
ttCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa > 1:762229/1‑68 (MQ=255)
ttaTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:2103041/67‑1 (MQ=255)
ttaTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:2650180/67‑1 (MQ=255)
ttaTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:3054260/67‑1 (MQ=255)
ttaTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:1859636/67‑1 (MQ=255)
ttaTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:3286732/67‑1 (MQ=255)
taTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:836545/67‑1 (MQ=255)
cATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAAtt > 1:3294581/1‑69 (MQ=255)
cATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAAtt > 1:2435627/1‑69 (MQ=255)
cATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAAtt > 1:2891361/1‑69 (MQ=255)
cATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAAtt > 1:518742/1‑69 (MQ=255)
cATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAAtt > 1:1569123/1‑69 (MQ=255)
aTCGTTAGCGATGAGGTCCAGATAACGTTGACGATAACGGACTTCCTGATCCTGCAGACCATGGAAt < 1:2509335/67‑1 (MQ=255)
gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAg < 1:137030/69‑1 (MQ=255)
gatgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAg < 1:95489/69‑1 (MQ=255)
tgagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCg > 1:3327772/1‑69 (MQ=255)
gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTa > 1:1460270/1‑58 (MQ=255)
gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCgg > 1:820712/1‑69 (MQ=255)
gagatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCgg > 1:2157798/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:352976/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:413507/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:3421006/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:1455207/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:557435/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa < 1:675500/69‑1 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa < 1:3291335/69‑1 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:2845358/1‑69 (MQ=255)
agatCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGa > 1:2217318/1‑69 (MQ=255)
cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCa > 1:2909694/1‑69 (MQ=255)
cGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCa > 1:1892086/1‑69 (MQ=255)
|
AGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCA > minE/1933867‑1933994
|
| 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
