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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
834,005 |
A→C |
41.9% |
K821N (AAA→AAC) ‡ |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 834,005 | 0 | A | C | 41.9%
| 3.2
/ 53.0
| 43 | K821N (AAA→AAC) ‡ | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (12/13); new base C (8/10); total (20/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTAAAG > Exported/833938‑834075
|
aTACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGc < 1:3035158/71‑1 (MQ=255)
cGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:5187583/1‑71 (MQ=255)
ggATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTggg < 1:1846389/71‑1 (MQ=255)
ggATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:3689816/1‑70 (MQ=255)
tatGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGTGaaa < 1:1481207/71‑1 (MQ=255)
tatGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGaaa < 1:2915590/71‑1 (MQ=255)
tatGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGa < 1:3322576/69‑1 (MQ=255)
gCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGa > 1:2439283/1‑60 (MQ=255)
cATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCt < 1:3401193/70‑1 (MQ=255)
cATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTa < 1:4377260/71‑1 (MQ=255)
cATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTa < 1:771430/71‑1 (MQ=255)
tCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGc < 1:78578/55‑1 (MQ=255)
cGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACaaa < 1:1469837/71‑1 (MQ=255)
cGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACa > 1:4287315/1‑69 (MQ=255)
cGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACa > 1:3522696/1‑69 (MQ=255)
gTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAAt < 1:4112380/63‑1 (MQ=255)
tttATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGc < 1:5515961/51‑1 (MQ=255)
ttATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAgg > 1:4407565/1‑69 (MQ=255)
tATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:5369519/1‑55 (MQ=255)
tATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:5665279/1‑55 (MQ=255)
tATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAggta > 1:4662936/1‑68 (MQ=255)
tATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCa > 1:3288003/1‑71 (MQ=255)
tATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCa > 1:5064259/1‑71 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca < 1:5645485/70‑3 (MQ=255)
gCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCgaag > 1:4232274/1‑70 (MQ=255)
ctttCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATCGCcaa > 1:2376203/4‑68 (MQ=255)
gTCGATCCGGCGGGGGAATCACGCAGCGACTGGGAAATCTACaa < 1:2095785/44‑1 (MQ=255)
gTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAgt < 1:593408/71‑1 (MQ=255)
cGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGaaa > 1:3149122/1‑58 (MQ=255)
gATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATCGCCAAAGCATTTTCGCAAGtgtg < 1:4110679/71‑1 (MQ=255)
aTCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATCGCCAAAGCATTTTCGCAAGTGTGc < 1:1316784/71‑1 (MQ=255)
aTCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGc < 1:3609045/43‑1 (MQ=255)
aTCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAgtgt < 1:2696619/69‑1 (MQ=255)
aTCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGc > 1:217339/1‑71 (MQ=255)
tCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACaa < 1:2132342/39‑1 (MQ=16)
tCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCg > 1:1893072/1‑71 (MQ=255)
tCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCg > 1:1222129/1‑71 (MQ=255)
ccGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGt > 1:3690035/1‑71 (MQ=255)
cGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGt < 1:5064572/70‑1 (MQ=255)
gCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGcc < 1:349508/39‑1 (MQ=255)
cGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTggg > 1:4726129/1‑70 (MQ=255)
gAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGa < 1:5235413/48‑1 (MQ=255)
gAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGt > 1:2200177/1‑70 (MQ=255)
aaaGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATtctc > 1:3297926/1‑43 (MQ=255)
aaaGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTa > 1:1998257/1‑69 (MQ=255)
aaGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTa > 1:3336904/1‑68 (MQ=255)
aaGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTAAAg < 1:3145946/71‑1 (MQ=255)
aaGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTAAAg < 1:2508654/71‑1 (MQ=255)
|
ATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTAAAG > Exported/833938‑834075
|
| 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
