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 |
2,893,074 |
C→T |
45.8% |
V211V (GTC→GTT) |
ytfR → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,893,074 | 0 | C | T | 45.8%
| 11.3
/ 57.6
| 72 | V211V (GTC→GTT) | ytfR | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (12/27); new base T (14/19); total (26/46) |
| Fisher's exact test for biased strand distribution p-value = 3.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
TGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAC > minE/2893013‑2893138
|
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:2271322/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:1521614/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:668604/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:1115739/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:429282/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:1342747/1‑68 (MQ=255)
tGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGAt > 1:1338853/1‑68 (MQ=255)
gATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:792998/69‑1 (MQ=255)
gATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:1771713/69‑1 (MQ=255)
gATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:1284098/69‑1 (MQ=255)
gATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:421775/69‑1 (MQ=255)
gATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:776748/69‑1 (MQ=255)
aTCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATc < 1:1814883/68‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:3349555/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:2749150/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:695838/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:273797/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:2131003/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1953713/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1906584/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1900670/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:953371/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1272566/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1063416/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1061415/69‑1 (MQ=255)
cgTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1618762/69‑1 (MQ=255)
cgTCACCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:82502/69‑1 (MQ=255)
gTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:3106208/68‑1 (MQ=255)
gTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:3092092/68‑1 (MQ=255)
gTCAGCCTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:2272996/68‑1 (MQ=255)
ccTGATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:1059101/63‑1 (MQ=255)
gATCTTCGTCACTCATTTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCtt < 1:2240814/60‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:3283605/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:3285454/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2763195/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:592857/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2585812/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2523907/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:1625006/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2065319/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2054931/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2189020/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2052389/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2029580/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:872417/62‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:1742488/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:1922987/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:376324/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:2923562/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:166480/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGCCAg < 1:11861/62‑1 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1001139/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:349614/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:86668/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1195488/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:751722/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2845051/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1972853/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2773975/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1993044/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1530345/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2732714/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2310932/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGACTTACGCAACGGCAGTTTTGtgg > 1:1714537/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATAGGATCAACGTCTTACg > 1:61115/1‑52 (MQ=255)
ctcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAg < 1:2706471/61‑1 (MQ=255)
cactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGc > 1:2335667/1‑69 (MQ=255)
cactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGc > 1:2778240/1‑69 (MQ=255)
cTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGa > 1:1979627/1‑69 (MQ=255)
cAGCTCAGCGATGGGATCACCGTCTTACGCAACGGCAg < 1:1427894/38‑1 (MQ=38)
aGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:2676507/1‑69 (MQ=255)
aGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:2861353/1‑69 (MQ=255)
cAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:1079963/1‑65 (MQ=255)
|
TGCGCGATCGCGGCGTCAGCCTGATTTTTGTCACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAC > minE/2893013‑2893138
|
| 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
