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 |
2,893,110 |
C→T |
44.6% |
F223F (TTC→TTT) |
ytfR → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,893,110 | 0 | C | T | 44.6%
| 7.8
/ 34.8
| 47 | F223F (TTC→TTT) | ytfR | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (13/13); new base T (13/8); total (26/21) |
| Fisher's exact test for biased strand distribution p-value = 5.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTGGGGCGCGAG > minE/2893045‑2893176
|
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:376324/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:1922987/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:166480/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:2923562/69‑1 (MQ=255)
actcactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:1742488/69‑1 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2732714/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2773975/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2310932/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:2845051/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1993044/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1972853/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:349614/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1530345/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1195488/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:751722/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:86668/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTTGtgg > 1:1001139/1‑67 (MQ=255)
ctcattTTCTCGATCAGGTTTATCAGGTTAGCGATCGGATCACCGACTTACGCAACGGCAGTTTTGtgg > 1:1714537/1‑67 (MQ=255)
cactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGc > 1:2778240/1‑69 (MQ=255)
cactTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGc > 1:2335667/1‑69 (MQ=255)
cTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGa > 1:1979627/1‑69 (MQ=255)
aGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:2861353/1‑69 (MQ=255)
aGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:2676507/1‑69 (MQ=255)
cAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTAc > 1:1079963/1‑65 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTa < 1:1031387/35‑1 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCg < 1:2179249/69‑1 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCg < 1:860921/69‑1 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCg < 1:796994/69‑1 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCg < 1:2921406/69‑1 (MQ=255)
aTCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCg < 1:3125423/69‑1 (MQ=255)
tCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGa < 1:731656/69‑1 (MQ=255)
gCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAatga < 1:926606/66‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:3176372/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:3369380/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:398087/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:54191/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:2890954/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:11366/69‑1 (MQ=255)
aaCGGCAGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:2618018/69‑1 (MQ=255)
gggaGTTTTGTGGGCTGTCGGGAAACCCGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTg < 1:1248312/63‑1 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAat > 1:3381862/1‑53 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAat > 1:1822144/1‑53 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAat > 1:507739/1‑53 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAat > 1:2045014/1‑53 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAat > 1:216620/1‑53 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTGGGGCGCGAg > 1:1833120/1‑69 (MQ=255)
ttCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTGGGGCGCGAg > 1:1137044/1‑69 (MQ=255)
|
ACTCACTTTCTCGATCAGGTCTATCAGGTCAGCGATCGGATCACCGTCTTACGCAACGGCAGTTTCGTAGGCTGTCGGGAAACGTGCGAGCTACCGCAGATCGAACTGGTAAAAATGATGCTGGGGCGCGAG > minE/2893045‑2893176
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
