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 |
264,912 |
T→G |
45.9% |
T270T (ACT→ACG) |
thiL → |
thiamin‑monophosphate kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 264,912 | 0 | T | G | 45.9%
| ‑1.3
/ 54.4
| 48 | T270T (ACT→ACG) | thiL | thiamin‑monophosphate kinase |
| Reads supporting (aligned to +/- strand): ref base T (22/4); new base G (15/7); total (37/11) |
| Fisher's exact test for biased strand distribution p-value = 3.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTG > minE/264848‑264977
|
ttGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGc > 1:2791594/1‑69 (MQ=255)
ttGAACCGGAACAGGCGCTGCGCTGGGCGCTATCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGc > 1:606041/1‑69 (MQ=255)
gcgctgcgctGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCg > 1:2346409/1‑68 (MQ=255)
gcgctgcgctGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCg > 1:3099864/1‑68 (MQ=255)
gcgctgcgctGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCg > 1:1792627/1‑68 (MQ=255)
gcgctgcgctGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGt > 1:1475179/1‑69 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:228333/69‑1 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:3018198/69‑1 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:542218/69‑1 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:785993/69‑1 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:844526/69‑1 (MQ=255)
cgctgcgctgGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:1173043/69‑1 (MQ=255)
ctctctGGCGGTGAAGATTACGAGTTGTGTTTCACGGTGCCGGAACTGAACCGTg < 1:2722240/55‑1 (MQ=255)
gTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGac < 1:476271/69‑1 (MQ=255)
gTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGac < 1:1229341/69‑1 (MQ=255)
gTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGac < 1:1166598/69‑1 (MQ=255)
gATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTg > 1:646651/1‑69 (MQ=255)
gATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTg > 1:2472374/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:2891109/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:2679181/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:2517998/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:208049/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:1970357/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:1494565/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGct > 1:1822058/1‑46 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:207046/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:2061617/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:2591830/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:1972304/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:1376113/1‑69 (MQ=255)
gtgtTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGtt > 1:1741565/1‑69 (MQ=255)
tCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:2914778/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTg > 1:1453306/1‑53 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTAc > 1:90703/1‑60 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTa > 1:3010424/1‑66 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:1887161/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:3080235/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:2128204/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:3212225/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:2969589/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:1679447/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:581535/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:2938747/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:1901244/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:1181778/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:193466/1‑68 (MQ=255)
tCACGGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTAcc > 1:920918/1‑68 (MQ=255)
aCTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTg < 1:2825466/68‑1 (MQ=255)
|
TTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTG > minE/264848‑264977
|
| 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
