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 |
834,414 |
A→G |
28.8% |
T958A (ACA→GCA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 834,414 | 0 | A | G | 28.8%
| 71.4
/ 33.1
| 52 | T958A (ACA→GCA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (22/15); new base G (10/5); total (32/20) |
| Fisher's exact test for biased strand distribution p-value = 7.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAAGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGCGAA > Exported/834344‑834473
|
cAAAGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGa > 1:2804152/1‑71 (MQ=255)
aGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGacac < 1:799572/71‑1 (MQ=255)
aGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGacac > 1:117271/1‑71 (MQ=255)
aGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGacac > 1:3474654/1‑71 (MQ=255)
aGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGacac > 1:3238812/1‑71 (MQ=255)
aGCGGAAGGTCCGGCGAAAGGACAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGacac > 1:2200624/1‑71 (MQ=255)
cGGAAGGTCCGGGGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGac > 1:4328888/1‑67 (MQ=255)
cGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATTATCCTGACACTg < 1:5524038/71‑1 (MQ=255)
cGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGac > 1:4090681/1‑67 (MQ=255)
gAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGc < 1:3128083/71‑1 (MQ=255)
aaGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGaca > 1:4045272/1‑65 (MQ=255)
aaGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGac > 1:5615062/1‑64 (MQ=255)
ggTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAcc > 1:1892218/1‑71 (MQ=255)
ggTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAcc > 1:2905575/1‑71 (MQ=255)
ggTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAcc > 1:5262326/1‑71 (MQ=255)
ggTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAcc > 1:279286/1‑71 (MQ=255)
ggTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAcc > 1:2593234/1‑71 (MQ=255)
cGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa > 1:2987085/1‑70 (MQ=255)
aGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACg > 1:1376679/1‑71 (MQ=255)
ccAGCCGATGCTGAACACCGCAATTGATGC‑‑CAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAg < 1:482382/71‑1 (MQ=255)
aGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAg < 1:2406312/71‑1 (MQ=255)
ccGATGATTGACACCGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGaaa > 1:246601/1‑58 (MQ=255)
tGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTTAGGTAGcc > 1:3078595/1‑71 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa < 1:4031152/51‑1 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa < 1:2659106/51‑1 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa < 1:2746630/51‑1 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa < 1:1163626/51‑1 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGa < 1:3195754/51‑1 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACg > 1:5672233/1‑59 (MQ=255)
gCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCg > 1:524524/1‑71 (MQ=255)
cTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCAGAAACCAACGGTCAGGTAGCCGt > 1:2728700/1‑71 (MQ=255)
ttgacacCGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGt > 1:3927219/4‑70 (MQ=255)
gacacCGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGtca > 1:2513408/2‑68 (MQ=255)
aaCACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAg > 1:2180490/1‑64 (MQ=255)
aaCACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTg > 1:1513117/1‑69 (MQ=255)
aaCACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGa > 1:1088208/1‑70 (MQ=255)
aaCACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGa > 1:1921058/1‑70 (MQ=255)
acacCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCAc > 1:3256172/1‑42 (MQ=255)
acCGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGc < 1:5314949/71‑1 (MQ=255)
acCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCACCGGTCAGGTAGCCGTGAAAGc < 1:5325265/71‑1 (MQ=255)
acCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGc < 1:2065873/71‑1 (MQ=255)
ccGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGcg < 1:2907865/71‑2 (MQ=255)
ccGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGcg < 1:4829589/71‑2 (MQ=255)
ccGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGcc < 1:2940260/71‑1 (MQ=255)
cGCCATTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGcg < 1:2075062/70‑2 (MQ=255)
ccaTTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTgg > 1:4249939/3‑71 (MQ=255)
ccaTTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTgg > 1:1319085/3‑71 (MQ=255)
caTTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCaa > 1:2852855/2‑45 (MQ=12)
caTTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCaa > 1:3723102/2‑45 (MQ=12)
caTTGACGCTTCAGAAGTGATTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTggc < 1:2837042/70‑2 (MQ=255)
ttGATGCGGCAGAGATGATCCTGACACTGGCACCGGaaa < 1:2889438/39‑1 (MQ=255)
tGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTg > 1:5306018/1‑66 (MQ=255)
gATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTg > 1:5443950/1‑65 (MQ=255)
gATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGc > 1:4143126/1‑71 (MQ=255)
gATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGc > 1:3230775/1‑71 (MQ=255)
agagATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGc > 1:1048035/1‑70 (MQ=255)
agagATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGCg < 1:5142443/71‑1 (MQ=255)
atgatCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGCGaa < 1:5637538/69‑1 (MQ=255)
gatTCTGGCACTGGCCCCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTggca > 1:4797438/1‑52 (MQ=255)
gatTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTggca > 1:1999719/1‑52 (MQ=255)
gatTCTGGCACTGGCACCGGAAACCAACGGTCATGTTGCAGTCAAAGCGTgg > 1:3563902/1‑52 (MQ=255)
gatCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGCGaa > 1:5447706/1‑67 (MQ=255)
|
CAAAGCGGAAGGTCCGGCGAAAGGCCAGCCGATGCTGAACACCGCAATTGATGCGGCAGAGATGATCCTGACACTGGCACCGGAAACCAACGGTCAGGTAGCCGTGAAAGCCTGGGCTGCCCTGAGCGAA > Exported/834344‑834473
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
