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 |
2,298,781 |
T→C |
40.5% |
K170R (AAA→AGA) |
metF ← |
5,10‑methylenetetrahydrofolate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,298,781 | 0 | T | C | 40.5%
| 10.3
/ 23.3
| 37 | K170R (AAA→AGA) | metF | 5,10‑methylenetetrahydrofolate reductase |
| Reads supporting (aligned to +/- strand): ref base T (15/7); new base C (5/10); total (20/17) |
| Fisher's exact test for biased strand distribution p-value = 4.98e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGACATCGAAGAAGAACTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGGA > minE/2298724‑2298848
|
tCGACATCGAAGAAGAACTGAGTAATGGCGCGGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAg > 1:918890/1‑68 (MQ=255)
tCGACATCGAAGAAGAACTGAGTAATGGCGCGGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAg > 1:2795630/1‑68 (MQ=255)
tCGACATCGAAGAAGAACTGAGTAATGGCGCGGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAg > 1:1415470/1‑68 (MQ=255)
tCGACATCGAAGAAGAACTGAGTAATGGCGCGGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAg > 1:1424857/1‑68 (MQ=255)
tCGACATCGAAGAAGAACTGAGTAATGGCGCGGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAg > 1:1621915/1‑68 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:1081488/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:868425/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:2909590/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:2516599/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:2348330/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:1900685/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt < 1:1806242/69‑1 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:1047157/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCt > 1:1569972/1‑69 (MQ=255)
cTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGACTGAGCGCt > 1:1213463/1‑69 (MQ=255)
gAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCttt > 1:3226356/1‑69 (MQ=255)
gAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCttt > 1:3148501/1‑69 (MQ=255)
gAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCttt > 1:2107294/1‑69 (MQ=255)
gAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCttt > 1:2767563/1‑69 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:1639675/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:3318847/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:3104833/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:2783955/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:177740/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:1889088/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:1631364/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:2202705/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:1989293/68‑1 (MQ=255)
ggcgcgGTTGGCTCCGGCATCCACTTTTCGTCTCAGGTTGAGTAAATCGGCCTGGGCACTTTTCGCTTc < 1:2086624/68‑1 (MQ=255)
ttGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGa < 1:1289613/69‑1 (MQ=255)
tGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGa < 1:2375722/68‑1 (MQ=255)
gCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGa < 1:439144/69‑1 (MQ=255)
gCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGa < 1:2720106/69‑1 (MQ=255)
gCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGa < 1:236746/69‑1 (MQ=255)
aTCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGa < 1:525237/67‑1 (MQ=255)
cACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATAcgc > 1:1201815/1‑69 (MQ=255)
cACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATAcgc > 1:2820335/1‑69 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTcc > 1:2730277/1‑40 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCa > 1:2231394/1‑65 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCa > 1:391303/1‑65 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGga < 1:3355776/69‑1 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGga < 1:262072/69‑1 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGga < 1:2472799/69‑1 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGga < 1:2405833/69‑1 (MQ=255)
tttCAGATTAAGCAAATCCGCCTGAGCGCTTTTT‑CTTCCGGGTGAACTTCCGGATAcgccg > 1:1154703/1‑61 (MQ=255)
|
TCGACATCGAAGAAGAACTGAGTAATCGCGCGGTTGGCTCCGGCATCCACTTTGCGTTTCAGATTAAGCAAATCCGCCTGAGCGCTTTTTGCTTCCGGGTGAACTTCCGGATACGCCGCCACGGA > minE/2298724‑2298848
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
