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 |
2,368,808 |
A→G |
63.9% |
G389G (GGA→GGG) |
fadB → |
fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,368,808 | 0 | A | G | 63.9%
| 36.3
/ 32.3
| 58 | G389G (GGA→GGG) | fadB | fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base A (12/9); new base G (9/28); total (21/37) |
| Fisher's exact test for biased strand distribution p-value = 2.19e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
AAGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGAAAAAAGC > minE/2368743‑2368867
|
aaGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCAGAATTCACCCAACGCTCGACTACGCCGGGttt < 1:2107447/69‑1 (MQ=255)
aaGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGttt < 1:1310956/69‑1 (MQ=255)
aaGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGttt < 1:1459754/69‑1 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGttt < 1:1040851/68‑1 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGAttt > 1:503975/1‑68 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTg > 1:2547356/1‑69 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTg > 1:2609505/1‑69 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTg > 1:1163726/1‑69 (MQ=255)
aGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTg > 1:2952528/1‑69 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:2168927/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:511113/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:579788/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:234460/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:1874574/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:468237/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:1466281/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:3000325/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:2840122/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:934923/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:977662/69‑1 (MQ=255)
gATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCGCGACTACGCCGGGTTTGa < 1:994982/69‑1 (MQ=255)
aTCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGa < 1:2859864/68‑1 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:523760/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:2108030/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:1972981/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:1760199/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:1355434/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:1327877/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:2453271/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:825187/1‑68 (MQ=255)
tGGTCTGAAACTGGCTGGCGTGATCTCCACAATTCACCCAACGCTCGACTACGCCGGGTTTGACcgcg > 1:1083495/1‑68 (MQ=255)
tGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTGACCGCGTGGata < 1:1880568/69‑1 (MQ=255)
aTCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGgtt > 1:2482662/1‑69 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:2608145/69‑1 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:365776/69‑1 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:3378632/69‑1 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:1110861/69‑1 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:305797/69‑1 (MQ=255)
cccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:2994369/69‑1 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATtgt > 1:1097065/1‑41 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaaa > 1:2444126/1‑69 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaaa > 1:3269832/1‑69 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaaa > 1:2838055/1‑69 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaaa > 1:2420718/1‑69 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaa < 1:1093109/68‑1 (MQ=255)
ccAACGCTCGACTACGCCGGATTTGACAGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGaaa > 1:100157/1‑69 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTTTTGAAAACCCGAAAGTGaaaa < 1:2238829/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAATTGaaaa < 1:3649/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:1027941/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:785278/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:2004492/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:2108912/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:2239766/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:3191383/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:245142/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:2514123/69‑1 (MQ=255)
tCGACTACGCCGGGTTTGACCGCGTGGATGTTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGaaaa < 1:2536432/69‑1 (MQ=255)
cTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGAAAAAAGc < 1:39911/69‑1 (MQ=255)
|
AAGATCGATGGTCTGAAACTGGCTGGCGTGATCTCCACAATCCACCCAACGCTCGACTACGCCGGATTTGACCGCGTGGATATTGTGGTAGAAGCGGTTGTTGAAAACCCGAAAGTGAAAAAAGC > minE/2368743‑2368867
|
| 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
