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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
834,002 |
G→A |
30.4% |
A820A (GCG→GCA) ‡ |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,002 | 0 | G | A | 30.4%
| 59.2
/ 32.9
| 46 | A820A (GCG→GCA) ‡ | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (16/16); new base A (4/10); total (20/26) |
| Fisher's exact test for biased strand distribution p-value = 2.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.24e-01 |
TCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTA > minE/833943‑834072
|
tCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTg > 1:2156777/1‑71 (MQ=255)
cGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:681132/1‑71 (MQ=255)
cGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTgg > 1:3257707/1‑71 (MQ=255)
ggATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTgg < 1:1921612/70‑1 (MQ=255)
gATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGa < 1:1009121/71‑1 (MQ=255)
atatGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGaa < 1:110971/71‑1 (MQ=255)
tatGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGaaa < 1:2340387/71‑1 (MQ=255)
tatGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGaaa < 1:2129344/71‑1 (MQ=255)
cGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACaa < 1:429712/70‑1 (MQ=255)
cGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACaa < 1:2271006/70‑1 (MQ=255)
ttATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGc > 1:583890/1‑70 (MQ=255)
tATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAggta > 1:1205943/1‑68 (MQ=255)
tATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAggt < 1:1102742/70‑3 (MQ=255)
ttCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATc > 1:1281837/1‑71 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAggt < 1:1713221/63‑3 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca < 1:921612/70‑3 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca < 1:781429/70‑3 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca < 1:2048209/70‑3 (MQ=255)
tccGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca < 1:292052/70‑3 (MQ=255)
cGCTTTCTGCGGCGGTCGATCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATcgcca > 1:3470978/1‑67 (MQ=255)
cGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATcgcg > 1:1838794/1‑68 (MQ=255)
cGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATcgcg > 1:2037592/1‑68 (MQ=255)
gCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCgaag > 1:1536389/1‑70 (MQ=255)
gTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATc < 1:2554677/49‑1 (MQ=255)
tCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATcgcg < 1:2575807/63‑1 (MQ=255)
tCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATcgcg < 1:2063502/63‑1 (MQ=255)
cggTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGaa < 1:1211621/71‑1 (MQ=255)
gTCGATACGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAg > 1:210192/1‑70 (MQ=255)
tCGATCCGGCCTGGGAAGCGAAACGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAAt < 1:1941501/60‑1 (MQ=255)
tCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGaaa < 1:3122900/36‑1 (MQ=255)
tCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCg < 1:1616871/66‑1 (MQ=255)
tCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAgtg > 1:2782389/1‑71 (MQ=255)
cGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATcgcg < 1:2342961/52‑1 (MQ=255)
aTCCGGCGTGGGAATCACGCAGCGACTGGGAAATCTACAAAGGTATCGCcaaa < 1:3020136/53‑2 (MQ=255)
tCCGGCCTTGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCg < 1:945227/71‑1 (MQ=255)
ccGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGt > 1:3054163/1‑71 (MQ=255)
ccGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGt > 1:1433009/1‑71 (MQ=255)
cTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATtct > 1:3820388/1‑53 (MQ=255)
ctggAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGc > 1:2525992/3‑63 (MQ=255)
ggAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATc > 1:1586483/1‑71 (MQ=255)
ggAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATc > 1:597351/1‑71 (MQ=255)
gAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCt < 1:2591893/71‑1 (MQ=255)
aaGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTg < 1:1974148/71‑1 (MQ=255)
aGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGaa > 1:1634938/1‑52 (MQ=255)
aGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTgg > 1:2398472/1‑71 (MQ=255)
gCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTggg < 1:1754002/71‑1 (MQ=255)
gAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTgg < 1:2087617/68‑1 (MQ=255)
gAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTa < 1:3754192/71‑1 (MQ=255)
gAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTa < 1:1517705/71‑1 (MQ=255)
|
TCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAGCGAAAAGCGACTGGGAAATCTACAAAGCCATCGCGAAGAAATTCTCCGAAGTGTGCGTCGGCCATCTGGGTA > minE/833943‑834072
|
| 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
