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 |
1,193,222 |
T→A |
47.2% |
V147V (GTA→GTT) |
fadD ← |
acyl‑CoA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,193,222 | 0 | T | A | 47.2%
| 1.9
/ 82.2
| 70 | V147V (GTA→GTT) | fadD | acyl‑CoA synthetase |
| Reads supporting (aligned to +/- strand): ref base T (19/18); new base A (21/12); total (40/30) |
| Fisher's exact test for biased strand distribution p-value = 3.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.65e-01 |
TTTAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACA > minE/1193156‑1193288
|
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTGAGAATTAc > 1:1930767/1‑69 (MQ=255)
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTAc > 1:381919/1‑69 (MQ=255)
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTAc > 1:857753/1‑69 (MQ=255)
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTAc > 1:1294466/1‑69 (MQ=255)
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTAc > 1:581883/1‑69 (MQ=255)
tttAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTAc > 1:2067728/1‑69 (MQ=255)
aacGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTg < 1:1013237/69‑1 (MQ=255)
aacGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTg < 1:2703162/69‑1 (MQ=255)
aacGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTg < 1:678085/69‑1 (MQ=255)
tACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGtttt < 1:61011/69‑1 (MQ=255)
tACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGtttt < 1:2068553/69‑1 (MQ=255)
tACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGtttt < 1:199135/69‑1 (MQ=255)
tACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGtttt < 1:1528251/69‑1 (MQ=255)
tACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGcttt < 1:1399077/69‑1 (MQ=255)
aCCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGttt < 1:1060670/67‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:2479076/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:3387999/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:3200109/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:2904346/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:506101/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:1123599/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:2526621/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:826259/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:1755477/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:1873045/68‑1 (MQ=255)
gTAGATAGCTGATCGCCCATACGGGTCAGAATAACGTGCTGAACGGCGGGTTTATCAACCACTTTTTc < 1:63189/68‑1 (MQ=255)
gATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTTTCAACCACTTTTTCCAgt > 1:131118/1‑69 (MQ=255)
gATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAgt > 1:1465220/1‑69 (MQ=255)
gATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAgt > 1:2117789/1‑69 (MQ=255)
gATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAgt > 1:1846808/1‑69 (MQ=255)
aGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAgtgt > 1:1376675/1‑68 (MQ=255)
aGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAgtgt > 1:388671/1‑68 (MQ=255)
ccATACGGGTCAGAATTACGTGCTGAACGGCGGtttt < 1:305981/37‑1 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:3034641/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2990387/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:1620330/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:3102201/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:805130/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:3280145/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2896607/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:285904/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2778637/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2716363/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2712581/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:266609/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2424192/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:508315/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2413383/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:2285532/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:614062/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:1325561/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:85307/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAAACACTTTTTCCAGAGTGTGGGCAAAGTTa > 1:409850/1‑68 (MQ=255)
tACGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAAACACTTTTTCCAGAGTGCGGGCAAAGTTa > 1:2500694/1‑68 (MQ=255)
aCGGGTCAGAATAACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:992221/48‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:3164954/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:1005772/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:988995/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:683618/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:602527/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:2322562/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:450390/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTc < 1:3306108/47‑1 (MQ=255)
cGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGac > 1:2180596/1‑69 (MQ=255)
cAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGAt > 1:662781/1‑69 (MQ=255)
cAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGAt > 1:2976133/1‑69 (MQ=255)
aGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCTAAGTTAGACACGAt > 1:935892/1‑68 (MQ=255)
aGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGAt > 1:2423991/1‑68 (MQ=255)
aGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGAt > 1:2130187/1‑68 (MQ=255)
aGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGAt > 1:1833096/1‑68 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:2711638/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:1839383/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:1736746/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:1629760/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:1358054/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:1185488/68‑1 (MQ=255)
ttACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACa < 1:3135452/68‑1 (MQ=255)
|
TTTAACAACGAAATTGACTACCGTGCCTTTTGCCGTAGATAGCTGATCGCCCATACGGGTCAGAATTACGTGCTGAACGGCGGTTTTATCAACCACTTTTTCCAGTGTGTGAGCAAAGTTAGACACGATAACA > minE/1193156‑1193288
|
| 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
