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 |
836,119 |
T→G |
63.5% |
A279A (GCT→GCG) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,119 | 0 | T | G | 63.5%
| 33.6
/ 27.6
| 41 | A279A (GCT→GCG) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base T (7/8); new base G (6/20); total (13/28) |
| Fisher's exact test for biased strand distribution p-value = 1.68e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.56e-01 |
CCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACGTGTTCCTC > minE/836052‑836185
|
ccGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTa < 1:3390407/69‑1 (MQ=255)
ccGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTa < 1:2424121/69‑1 (MQ=255)
tgttCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGAtt < 1:2871531/63‑1 (MQ=255)
tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGaa < 1:1413445/69‑1 (MQ=255)
tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGaa < 1:1417569/69‑1 (MQ=255)
tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGaa < 1:1438522/69‑1 (MQ=255)
tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGaa < 1:3364354/69‑1 (MQ=255)
tCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGaa < 1:1148584/66‑1 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:1500408/1‑64 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:2654348/1‑64 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:243255/1‑64 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:1218498/1‑64 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:1151431/1‑64 (MQ=255)
tcggtcgTATCCGTTATCTTGGCGTGCTGCTGTACGATGCCGACGCGATTGAACGTGcggcaagta > 1:3183048/1‑64 (MQ=255)
cGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACcgagaacga > 1:778388/1‑65 (MQ=255)
aTCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTg > 1:416477/1‑42 (MQ=255)
ttGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCtt < 1:925299/68‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACTGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:238120/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:3351754/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:546074/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:344941/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:522549/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:2791760/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:650158/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:989059/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:3302751/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:1055057/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:2465319/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:1847760/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:16617/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:1483394/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:1380268/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:1081539/67‑1 (MQ=255)
gctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGAGCTCTACCAGCGTCa < 1:471790/67‑1 (MQ=255)
ctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:2974790/67‑1 (MQ=255)
ctgtACGATGCCGACGCGATTGAACGTGCGGCAAGTACCGAGAACGAGAAAGATCTCTACCAGCGTCa < 1:3382707/67‑1 (MQ=255)
aTGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACg > 1:2892679/1‑69 (MQ=255)
aTGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACg > 1:2343760/1‑69 (MQ=255)
aTGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACg > 1:557210/1‑69 (MQ=255)
aTGCCGAAGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACg > 1:1729600/1‑69 (MQ=255)
gCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACGTGTTCCTc > 1:3386408/1‑69 (MQ=255)
|
CCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACCGAGAACGAGAAAGATCTTTACCAGCGTCAGCTGGACGTGTTCCTC > minE/836052‑836185
|
| 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
