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 |
834,665 |
T→C |
43.9% |
G1041G (GGT→GGC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,665 | 0 | T | C | 43.9%
| 4.6
/ 29.9
| 41 | G1041G (GGT→GGC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (11/12); new base C (10/8); total (21/20) |
| Fisher's exact test for biased strand distribution p-value = 7.56e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGG > minE/834596‑834723
|
tGAACACGTTTCTT‑‑AACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtc > 1:2811668/1‑69 (MQ=255)
cacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtc > 1:1904641/1‑67 (MQ=255)
ccGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAgg < 1:1298452/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:2019251/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:1098044/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:416820/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:3261795/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:1891126/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:3056726/69‑1 (MQ=255)
gTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:2451720/68‑1 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:1455596/69‑1 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:150346/69‑1 (MQ=255)
cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt < 1:1704714/69‑1 (MQ=255)
cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt < 1:3211145/69‑1 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCAc > 1:77332/1‑46 (MQ=38)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCgg > 1:2748044/1‑66 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2951117/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:3234926/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2567827/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2454476/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:1069020/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2204985/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:1433619/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:1353817/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:2050459/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:2622360/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1504995/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:2768016/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1025308/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:763298/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1109549/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:421434/1‑67 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:860637/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:819558/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:798643/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:727599/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1218414/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1398656/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1959281/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:2553461/69‑1 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCAGCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTgg > 1:531865/1‑68 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCct > 1:1215407/1‑63 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTgg > 1:1370806/1‑68 (MQ=255)
|
TGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGG > minE/834596‑834723
|
| 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
