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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,282,409 |
A→G |
15.2% |
P323P (CCA→CCG) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,282,409 | 0 | A | G | 15.2%
| 107.3
/ 13.4
| 46 | P323P (CCA→CCG) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (28/11); new base G (5/2); total (33/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 |
ACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCTGG > W3110S.gb/1282344‑1282470
|
aCCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGc < 1:3290069/69‑1 (MQ=255)
gCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTAt < 1:961881/69‑1 (MQ=255)
gCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTAt < 1:686438/69‑1 (MQ=255)
gCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCGAGCCAGTATTTc > 1:2658983/1‑69 (MQ=255)
gCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTc > 1:2362842/1‑69 (MQ=255)
ggCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTc > 1:716389/1‑64 (MQ=255)
gcgcTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGGCAACCCAAGCCAGTATTTCACCGAc > 1:1716144/1‑69 (MQ=255)
gcgcTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGAc > 1:1081175/1‑69 (MQ=255)
gcgcTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGAc > 1:358848/1‑69 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCGAGCCAGTATTTCACCGACTATGTGCGTCg > 1:1659001/1‑68 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCGAGCCAGTATTTCACCGACTATGTGCGTCGc > 1:1230434/1‑69 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCGAGCCAGTATTTCACCGACTATGTGCGTCGc > 1:2280599/1‑69 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGc > 1:1630083/1‑42 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGc > 1:3532629/1‑42 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGc > 1:2997328/1‑42 (MQ=255)
ggCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGc > 1:1173750/1‑42 (MQ=255)
ccACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTa > 1:39311/1‑69 (MQ=255)
ccACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTa > 1:707095/1‑69 (MQ=255)
ccACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTa > 1:1273188/1‑69 (MQ=255)
tAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACAcc > 1:674754/1‑68 (MQ=255)
tAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACAcc > 1:2546879/1‑68 (MQ=255)
aaTGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa < 1:2399500/69‑1 (MQ=255)
aaTGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa < 1:92219/69‑1 (MQ=255)
gctgcGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCAGCGACTATGTGCGTCGCTACACCGACa < 1:1105164/68‑1 (MQ=255)
gctgcGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACa < 1:631374/68‑1 (MQ=255)
gctgcGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACa < 1:2700384/68‑1 (MQ=255)
ctgcGTGAATTCCACCTCGACAACCCGAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATg > 1:1862649/1‑69 (MQ=255)
tgcGTGAATTCCACCTCGACAACCCGAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa < 1:1794888/64‑1 (MQ=255)
gcGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGcc < 1:2559911/69‑1 (MQ=255)
gtaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa > 1:380395/3‑59 (MQ=255)
gAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa > 1:1276778/1‑59 (MQ=255)
gAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGa > 1:1553264/1‑59 (MQ=255)
aaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTa > 1:1466791/1‑40 (MQ=255)
aaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTAtg > 1:2797995/1‑42 (MQ=255)
aaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTAtg > 1:1931463/1‑42 (MQ=255)
aaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTAtg > 1:2435311/1‑42 (MQ=255)
aaTTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTAtg > 1:2577482/1‑42 (MQ=255)
ccACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGt > 1:1506408/1‑69 (MQ=255)
ccACCTCGACAACCCAAGCCAGAATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGt > 1:713416/1‑69 (MQ=255)
cACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCt > 1:2545060/1‑46 (MQ=255)
cACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac > 1:1631674/1‑48 (MQ=255)
cACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac < 1:2088276/48‑1 (MQ=255)
cACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac < 1:3045252/48‑1 (MQ=255)
cACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac > 1:2813609/1‑48 (MQ=255)
gACAACCCAAGCCAGTATTTCACCGACTATTTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCt > 1:867587/1‑68 (MQ=255)
cAACCCGAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCTgg < 1:1668880/68‑1 (MQ=255)
|
ACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCTGG > W3110S.gb/1282344‑1282470
|
| 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
