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 |
348,416 |
A→G |
37.1% |
L238L (CTA→CTG) |
gcl → |
glyoxylate carboligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 348,416 | 0 | A | G | 37.1%
| 37.7
/ 43.4
| 70 | L238L (CTA→CTG) | gcl | glyoxylate carboligase |
| Reads supporting (aligned to +/- strand): ref base A (25/19); new base G (21/5); total (46/24) |
| Fisher's exact test for biased strand distribution p-value = 6.71e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCA > minE/348348‑348475
|
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:3133398/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:3140977/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:1781248/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:175969/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:1230141/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:794159/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:1700880/1‑69 (MQ=255)
aatGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTa > 1:551008/1‑69 (MQ=255)
cAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATgggctggg > 1:1125972/1‑69 (MQ=255)
cAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATgggctggg > 1:1798060/1‑69 (MQ=255)
cAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATgggctggg > 1:2127907/1‑69 (MQ=255)
cAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATgggctggg > 1:738456/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:242812/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:453756/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:765871/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:951221/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:951973/1‑69 (MQ=255)
gCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:2702807/1‑69 (MQ=255)
gCACTCTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGt > 1:2920399/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGt > 1:1168259/1‑68 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1724019/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:2610891/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:2910793/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:221073/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:2611029/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:2058274/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:204396/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:272599/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1982662/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1948823/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:3200473/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1671971/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1578300/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1547480/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1521453/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:499272/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:629572/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1075409/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGACCAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:1017264/1‑69 (MQ=255)
cACTGTTACAACAGTTTGCTGAACTGAACAGCATTCCGGTGATCCCAACGCTGATGGGCTGGGGCTGTa > 1:752855/1‑69 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:1063744/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:3118590/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:3047315/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:2899930/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:1291906/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:1303594/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:2339839/69‑1 (MQ=255)
caGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:1496511/69‑1 (MQ=255)
aGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:2075801/68‑1 (MQ=255)
gTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGAt < 1:454305/67‑1 (MQ=255)
ttGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATg > 1:2728333/1‑69 (MQ=255)
ttGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATg > 1:91891/1‑69 (MQ=255)
ttGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATg > 1:168819/1‑69 (MQ=255)
ttGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATg > 1:2947453/1‑69 (MQ=255)
ttGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATg > 1:2639673/1‑69 (MQ=255)
tGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGa > 1:1350476/1‑69 (MQ=255)
tGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGa > 1:603657/1‑69 (MQ=255)
cTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATg > 1:681713/1‑69 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:2126627/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:928631/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:1823917/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:1265920/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:1282968/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:2750998/61‑1 (MQ=255)
ccAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:2791026/61‑1 (MQ=255)
gCGTTCCGGTGATCCTAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:957125/58‑1 (MQ=255)
tGATCCCAACGCTGATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTgggcc < 1:1149675/69‑3 (MQ=255)
tGATCCCAACGCTGATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTgggcc < 1:2985321/69‑3 (MQ=255)
gATCCCAACGCTGATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTgggcc < 1:2216154/68‑3 (MQ=255)
cccAACGCTGATGGGCTGGGGCTGTATCCCGGACGATCATGAACTAATGGCCGGGATGGTgggcc < 1:465374/65‑3 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:1487412/1‑69 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:402697/1‑69 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:3426247/1‑69 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:2685980/1‑69 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:1951252/1‑69 (MQ=255)
cccAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCa > 1:1206713/1‑69 (MQ=255)
ccAACGCTGATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTgggcc < 1:1315190/64‑3 (MQ=255)
cTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACt < 1:80134/38‑1 (MQ=255)
|
AATGCTGACGCAGCTGCACTGTTACAACAGTTTGCTGAACTGACCAGCGTTCCGGTGATCCCAACGCTAATGGGCTGGGGCTGTATCCCGGACGATCATGAACTGATGGCCGGGATGGTGGGTCTGCA > minE/348348‑348475
|
| 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
