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 |
2,613,876 |
A→G |
25.9% |
A115A (GCT→GCC) |
acpT ← |
holo‑(acyl carrier protein) synthase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,613,876 | 0 | A | G | 25.9%
| 54.9
/ 16.5
| 50 | A115A (GCT→GCC) | acpT | holo‑(acyl carrier protein) synthase 2 |
| Reads supporting (aligned to +/- strand): ref base A (12/25); new base G (7/6); total (19/31) |
| Fisher's exact test for biased strand distribution p-value = 1.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.85e-01 |
TTCTTTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCACT > minE/2613810‑2613942
|
ttcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAg < 1:343838/68‑1 (MQ=255)
ttcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAg < 1:1360393/68‑1 (MQ=255)
ttcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAg < 1:3101234/68‑1 (MQ=255)
ttcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAg < 1:2941169/68‑1 (MQ=255)
tcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCg < 1:976176/69‑1 (MQ=255)
tcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCg < 1:3117769/69‑1 (MQ=255)
tcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCg < 1:3006449/69‑1 (MQ=255)
tcttTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCg < 1:1672844/69‑1 (MQ=255)
tttGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCgtg > 1:1722801/1‑69 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:2844203/66‑1 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:997716/66‑1 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:3379132/66‑1 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:2912370/66‑1 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:1255821/66‑1 (MQ=255)
cgcgTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCGGCatgt < 1:154749/66‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg < 1:1658951/68‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg < 1:110553/68‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg < 1:3307827/68‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg < 1:512048/68‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:1382932/1‑68 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg < 1:885886/68‑1 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:2135600/1‑68 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:2969302/1‑68 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:2649959/1‑68 (MQ=255)
tGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:2702933/1‑68 (MQ=255)
cgcgcCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTg > 1:1614768/2‑68 (MQ=255)
gcgcCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGaa < 1:1179860/69‑1 (MQ=255)
gcgcCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGaa < 1:2619666/69‑1 (MQ=255)
gcgcCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGaa < 1:1867784/69‑1 (MQ=255)
tCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCgcc > 1:3021359/1‑69 (MQ=255)
cAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCa < 1:3071935/67‑1 (MQ=255)
cAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCa < 1:1839382/67‑1 (MQ=255)
cAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCa < 1:1766216/67‑1 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:1051108/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:1885597/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:740304/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:527914/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:941222/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:350561/1‑51 (MQ=255)
ggCGTCCATCTCGGCATGTTCCCCAAGGCTGAATACGGCGTTCgccagcca > 1:3271783/1‑51 (MQ=255)
gCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCgg > 1:1069601/1‑68 (MQ=255)
gCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGATGGcgcgcg > 1:3037715/1‑67 (MQ=255)
tCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGa > 1:1524599/1‑69 (MQ=255)
tctcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCCCCAGTTGGCGCGCGGGCGAATCa < 1:3127877/69‑1 (MQ=255)
tctcAGAGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCa < 1:311949/69‑1 (MQ=255)
ctcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCAc < 1:1546962/69‑1 (MQ=255)
ctcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCAc < 1:1862204/69‑1 (MQ=255)
ctcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCAc < 1:1797740/69‑1 (MQ=255)
ctcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCAc < 1:177712/69‑1 (MQ=255)
tcAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCACt > 1:3397191/1‑69 (MQ=255)
|
TTCTTTGCGCGTCCAGATGCGCCAGAACATTTCCAGTTGCTGATCAGGATGCACGGCGTCCATCTCAGCGTGTTCCCCGAGGCTGAATACGGCGTTCGCCAGCCAGCGCCAGTTGGCGCGCGGGCGAATCACT > minE/2613810‑2613942
|
| 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
