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 |
834,294 |
G→T |
21.2% |
A918S (GCC→TCC) ‡ |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 834,294 | 0 | G | T | 21.2%
| 161.9
/ 25.4
| 66 | A918S (GCC→TCC) ‡ | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (22/30); new base T (10/4); total (32/34) |
| Fisher's exact test for biased strand distribution p-value = 7.27e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
GGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCGA > Exported/834224‑834363
|
ggCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTg < 1:2770132/71‑1 (MQ=255)
aCTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGG‑AAAGGGATTGCCTgg < 1:419840/71‑1 (MQ=255)
aCGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGaa < 1:291860/70‑1 (MQ=255)
aaCGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTgg < 1:267508/65‑1 (MQ=255)
aaCGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATAcc > 1:4518783/1‑71 (MQ=255)
gCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTgg < 1:3178416/62‑1 (MQ=255)
cTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGCTAATGGCGGTAAAGGGATTGCCTGGAACACCCaga < 1:761213/71‑1 (MQ=255)
ttACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGc < 1:1780629/55‑1 (MQ=255)
ttACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGc < 1:2732616/55‑1 (MQ=255)
tACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGc < 1:3115838/70‑1 (MQ=255)
tACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATACCCaggat < 1:4847850/70‑4 (MQ=255)
aCCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCg < 1:5329022/70‑1 (MQ=255)
ccTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCga < 1:2660199/70‑1 (MQ=255)
ccTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCga < 1:3160474/70‑1 (MQ=255)
ctctATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCgaga < 1:4396547/71‑1 (MQ=255)
ctATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGc < 1:210801/65‑1 (MQ=255)
tATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATg > 1:1766222/1‑70 (MQ=255)
aTCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGa > 1:894272/1‑71 (MQ=255)
aTCGGCCCGCTGATGGAGAAAATAGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGa > 1:4372801/1‑71 (MQ=255)
tCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:4481599/50‑1 (MQ=255)
tCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGAt > 1:3797728/1‑71 (MQ=255)
cGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATgg < 1:802142/68‑1 (MQ=255)
cGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:2551366/44‑1 (MQ=255)
cGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:4663557/44‑1 (MQ=255)
cGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:2845189/44‑1 (MQ=255)
cGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCga < 1:3581008/58‑1 (MQ=255)
cGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCga < 1:5435845/58‑1 (MQ=255)
gCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgg < 1:1579095/43‑1 (MQ=255)
cTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTgt < 1:4322964/42‑2 (MQ=255)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGaa > 1:2891107/1‑42 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGaa > 1:5430540/1‑42 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGaa > 1:5658164/1‑42 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGaa > 1:935884/1‑42 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGa > 1:198260/1‑41 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGa > 1:1536115/1‑41 (MQ=16)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATAcc > 1:2966700/1‑46 (MQ=255)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATAcc > 1:515111/1‑46 (MQ=255)
gATGGACAAACTTGGCAATGGCGGTAAAGGGATTTCGTGGAATAcc > 1:2030043/1‑46 (MQ=255)
tGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACAccc < 1:2677410/45‑1 (MQ=255)
tGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACAccc < 1:4887448/45‑1 (MQ=255)
tGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACAccc < 1:1775653/45‑1 (MQ=255)
agaAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCt > 1:5344887/1‑70 (MQ=255)
agaAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCt > 1:998717/1‑70 (MQ=255)
gaAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCa < 1:4824569/71‑1 (MQ=255)
aaaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAAc < 1:792991/71‑1 (MQ=255)
aaaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAAc > 1:1411784/1‑71 (MQ=255)
aaaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAAc < 1:205472/71‑1 (MQ=255)
aaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCgaga > 1:3745241/1‑47 (MQ=255)
aaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCgaga > 1:2346196/1‑47 (MQ=255)
aaTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCga < 1:3094082/45‑1 (MQ=255)
aTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTa < 1:5024182/71‑1 (MQ=255)
aTCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCAAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTa > 1:665690/1‑71 (MQ=255)
ggTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTacac > 1:3989957/1‑71 (MQ=255)
aTGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCgaga > 1:4239199/1‑39 (MQ=255)
aTGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCa > 1:2032368/1‑69 (MQ=255)
aTGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCa > 1:3679147/1‑69 (MQ=255)
ggCGGTAAAGGGATTTCGTGGAATACCCAGGATGAAATCGATTTCCTCGGCAAACTCAATTACACCaagc < 1:1823331/70‑3 (MQ=255)
ggCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTaca > 1:1385535/1‑64 (MQ=255)
gCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGc < 1:3435614/70‑1 (MQ=255)
aaaGGGATTGCCTGGAACACCCAGAGCGAGAGGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAgg > 1:4798302/1‑71 (MQ=255)
aaGGGATTGCCTGGAACACCCAGAGCGAGATGGAt > 1:1149982/1‑35 (MQ=255)
gggATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTcc < 1:3989496/71‑1 (MQ=255)
gggATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTcc > 1:761562/1‑71 (MQ=255)
aTTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGaa > 1:2290267/1‑63 (MQ=255)
tGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAg > 1:1857751/1‑62 (MQ=255)
tGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAg > 1:2595004/1‑62 (MQ=255)
tGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCg > 1:1114380/1‑70 (MQ=255)
gCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCGa < 1:1887641/70‑1 (MQ=255)
gCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCGa < 1:827078/70‑1 (MQ=255)
gCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCGa < 1:5102534/70‑1 (MQ=255)
|
GGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGGAACACCCAGAGCGAGATGGATCTGCTGCGTAAGCTCAACTACACCAAAGCGGAAGGTCCGGCGA > Exported/834224‑834363
|
| 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
