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 |
2,144,080 |
G→T |
39.0% |
A117A (GCG→GCT) |
argG → |
argininosuccinate synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,144,080 | 0 | G | T | 39.0%
| 51.6
/ 47.5
| 64 | A117A (GCG→GCT) | argG | argininosuccinate synthetase |
| Reads supporting (aligned to +/- strand): ref base G (19/20); new base T (4/21); total (23/41) |
| Fisher's exact test for biased strand distribution p-value = 8.77e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGATATCG > minE/2144023‑2144141
|
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGTTGCGATGAaagaa < 1:1244348/67‑1 (MQ=255)
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGTTGAaagaa < 1:1974269/67‑1 (MQ=255)
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAaagaa < 1:773254/67‑1 (MQ=255)
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAaagaa < 1:3009025/67‑1 (MQ=255)
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAaagaa < 1:2652208/67‑1 (MQ=255)
cTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAaagaa < 1:1551113/67‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAaagaa < 1:2230357/62‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGc > 1:3190904/1‑68 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:1624884/60‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:2011778/60‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:3076906/60‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:1797970/60‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:877111/60‑1 (MQ=255)
tCAACACGACGCCGCTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAaag < 1:2380063/60‑1 (MQ=255)
acacGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTg < 1:2844686/68‑1 (MQ=255)
acacGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTg < 1:283399/68‑1 (MQ=255)
acacGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTg < 1:294338/68‑1 (MQ=255)
cacGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTg < 1:244073/67‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:1964643/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:2199669/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:2545385/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:2591391/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:325636/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:855328/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:3432133/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:141164/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:998510/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:1917956/69‑1 (MQ=255)
cgcTGGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTAAATATCTggg < 1:1961665/69‑1 (MQ=255)
gcTTGGCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggg < 1:2511519/68‑1 (MQ=255)
gggCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGa > 1:2068318/1‑69 (MQ=255)
ggCCGCGCCGTGACCGGCACCATGCTGGTTGCTGCTATGAtag < 1:1716358/43‑1 (MQ=25)
cgcCGTGACCGGCACCATGCTGGTTGCTGCTATGAaaga > 1:1206981/1‑39 (MQ=37)
cgcCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTg > 1:972206/1‑49 (MQ=255)
cgcCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCt > 1:224418/1‑56 (MQ=255)
cgcCGTGACCGGCACCATGCTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTGGGGTgctg > 1:1689584/1‑62 (MQ=255)
gcCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:2850778/69‑1 (MQ=255)
gcCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:584123/69‑1 (MQ=255)
gcCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:2477991/69‑1 (MQ=255)
gcCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:2489416/69‑1 (MQ=255)
ccGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:226024/68‑1 (MQ=255)
ccGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGc < 1:1873490/68‑1 (MQ=255)
aCTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACgg > 1:127178/1‑59 (MQ=255)
aCTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTa > 1:406478/1‑68 (MQ=255)
aCTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTa > 1:2177696/1‑68 (MQ=255)
aCTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTa > 1:3249592/1‑68 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGaaa > 1:1182502/1‑68 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAAc > 1:1833979/1‑69 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAAc > 1:1082356/1‑69 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAAc > 1:1301194/1‑69 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAAc > 1:1829835/1‑69 (MQ=255)
aTGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAAc > 1:2360237/1‑69 (MQ=255)
cTGGTTGCTGCTATGAAAGAAGATGGCGTGAATATCTggt < 1:2677028/40‑2 (MQ=39)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:2107671/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:153060/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:3261653/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:2276985/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:92747/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGat > 1:2676271/1‑69 (MQ=255)
cTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGa > 1:1181627/1‑68 (MQ=255)
ttGCTGCTATGAAAGAAGATGGCGTGAATATCTggt < 1:2232346/36‑2 (MQ=38)
tgctgcGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGATATCg < 1:2795621/68‑1 (MQ=255)
tgctgcGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGATATCg < 1:2302541/68‑1 (MQ=255)
tgctgcGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGATATCg < 1:1453128/68‑1 (MQ=255)
|
CTATTTCAACACGACGCCGCTGGGCCGCGCCGTGACTGGTACCATGCTGGTTGCTGCGATGAAAGAAGATGGCGTGAATATCTGGGGTGACGGTAGCACCTACAAAGGAAACGATATCG > minE/2144023‑2144141
|
| 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
