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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,129,117 |
C→T |
45.2% |
A71T (GCC→ACC) |
fcl ← |
bifunctional GDP‑fucose synthetase: GDP‑4‑dehydro‑6‑deoxy‑D‑mannose epimerase and GDP‑4‑dehydro‑6‑L‑deoxygalactose reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,129,117 | 0 | C | T | 45.2%
| 7.1
/ 38.3
| 31 | A71T (GCC→ACC) | fcl | bifunctional GDP‑fucose synthetase: GDP‑4‑dehydro‑6‑deoxy‑D‑mannose epimerase and GDP‑4‑dehydro‑6‑L‑deoxygalactose reductase |
| Reads supporting (aligned to +/- strand): ref base C (14/3); new base T (9/5); total (23/8) |
| Fisher's exact test for biased strand distribution p-value = 4.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTGGCAAAGAAATCAT > W3110S.gb/2129050‑2129185
|
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:2379707/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:1561922/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:612337/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:2219334/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:2133653/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:3606058/71‑1 (MQ=255)
gcgTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCCGATAGGTGTTGTTGGtaac < 1:1113896/71‑1 (MQ=255)
gTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGtaacaa < 1:3389578/71‑1 (MQ=255)
tGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGtaacaa < 1:2369488/70‑1 (MQ=255)
atgTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGGCGGATAGGTGTTGTTGGTAACAATgccgcc > 1:850161/1‑71 (MQ=255)
tgTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATgccgcc > 1:2718173/1‑70 (MQ=255)
tgTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATgccgcc > 1:2928515/1‑70 (MQ=255)
tGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACt > 1:523457/1‑71 (MQ=255)
atcatcATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:513377/50‑1 (MQ=255)
atcatcATGTTCTCGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaac < 1:1014871/50‑1 (MQ=255)
atcatGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGtaa > 1:1116498/1‑46 (MQ=255)
catGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTcgccgccgc > 1:93287/1‑69 (MQ=255)
ttCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACt < 1:3184887/54‑1 (MQ=255)
ttCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACt < 1:949304/54‑1 (MQ=255)
cTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGcaacaa > 1:3533701/1‑41 (MQ=255)
cTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAg < 1:2542620/70‑1 (MQ=255)
cTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAg < 1:1986891/70‑1 (MQ=255)
tAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTg > 1:742156/1‑71 (MQ=255)
tAGATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTg > 1:1986473/1‑71 (MQ=255)
aGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATgccg > 1:141176/1‑41 (MQ=255)
gATGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGa < 1:1521060/61‑1 (MQ=255)
gATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGt > 1:849849/1‑71 (MQ=255)
gATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGt > 1:3253956/1‑71 (MQ=255)
gATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGt > 1:3344754/1‑71 (MQ=255)
gATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCACACTTTCGCCGCCGCCAGATAGACCTGGt > 1:2569303/1‑71 (MQ=255)
tGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGAt > 1:268726/1‑60 (MQ=255)
tGAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATa > 1:1986408/1‑61 (MQ=255)
gAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCaa > 1:2055433/1‑71 (MQ=255)
gAAATCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCaa > 1:3163973/1‑71 (MQ=255)
gAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCaa > 1:306758/1‑71 (MQ=255)
aaaTCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGa > 1:3717540/1‑57 (MQ=255)
aaaTCCGCCGGATAGGTGTTGTTGGTAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCaa > 1:1574068/1‑70 (MQ=255)
tCCGCCGGATAGGTGTTGTTGGCAACAATgccgcc > 1:1871653/1‑35 (MQ=255)
tCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGa > 1:3345072/1‑54 (MQ=255)
tAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTgg > 1:2660029/1‑70 (MQ=255)
gttgGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAAt > 1:335653/1‑51 (MQ=255)
ttgGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTGGCAAAGAAAt < 1:3239781/70‑1 (MQ=255)
ttgGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTGGCAAAGAAAt < 1:1430936/70‑1 (MQ=255)
gCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTGGCAAAGAAATCAt < 1:2805923/70‑1 (MQ=255)
|
GCGTGAATGATGTTGCTCTCAATCATCATGTTCTGGTAGATGAAATCCGCCGGATAGGTGTTGTTGGCAACAATGCCGCCCACTTTCGCCGCCGCCAGATAGACCTGGTCAATACGTTCGCTGGCAAAGAAATCAT > W3110S.gb/2129050‑2129185
|
| 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
