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 |
834,674 |
A→G |
42.8% |
Q1044Q (CAA→CAG) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,674 | 0 | A | G | 42.8%
| 7.2
/ 29.5
| 42 | Q1044Q (CAA→CAG) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (11/13); new base G (10/8); total (21/21) |
| Fisher's exact test for biased strand distribution p-value = 7.56e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
CCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGG > minE/834616‑834723
|
ccGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAgg < 1:1298452/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:1098044/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:416820/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:3261795/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:2019251/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:3056726/69‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:1891126/69‑1 (MQ=255)
gTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt < 1:2451720/68‑1 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:1455596/69‑1 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:150346/69‑1 (MQ=255)
cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt < 1:3211145/69‑1 (MQ=255)
cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt < 1:1704714/69‑1 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCAc > 1:77332/1‑46 (MQ=38)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCgg > 1:2748044/1‑66 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2567827/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2951117/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:2454476/1‑67 (MQ=255)
cccGTGGCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGt > 1:3234926/1‑67 (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 > 1:1025308/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:763298/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:421434/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1109549/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:2768016/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:2622360/1‑67 (MQ=255)
cccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1504995/1‑67 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1398656/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1218414/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:727599/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:2553461/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:1959281/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:798643/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:819558/69‑1 (MQ=255)
ggCGTACGCTCTCTGGCCGTCAGCAGCTGTATCAGGATCACCAATGGATGCGTGATTTCGGTGAAAGcc < 1:860637/69‑1 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCAGCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTgg > 1:531865/1‑68 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCct > 1:1215407/1‑63 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTgg > 1:1370806/1‑68 (MQ=255)
cgtcAGCAACTGTATCAGGATCACCAGTGGATGCGt < 1:2857752/36‑1 (MQ=255)
|
CCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGG > minE/834616‑834723
|
| 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
