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 |
711,136 |
G→A |
32.0% |
G93G (GGC→GGT) |
solA ← |
N‑methyltryptophan oxidase, FAD‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 711,136 | 0 | G | A | 32.0%
| 46.3
/ 26.1
| 56 | G93G (GGC→GGT) | solA | N‑methyltryptophan oxidase, FAD‑binding |
| Reads supporting (aligned to +/- strand): ref base G (21/17); new base A (4/14); total (25/31) |
| Fisher's exact test for biased strand distribution p-value = 2.44e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCGG > minE/711079‑711190
|
gAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCTGGCCAAGGTTAAt < 1:1713897/69‑1 (MQ=255)
gAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAAt < 1:1804041/69‑1 (MQ=255)
gAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAAt < 1:1728315/69‑1 (MQ=255)
gAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAAt < 1:1470783/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:736621/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:185930/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:1885946/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:249056/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:2565831/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:1721927/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:2706738/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:2841336/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:1434624/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:1356903/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:3045072/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:304587/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:1235327/69‑1 (MQ=255)
gAGTTGCCACTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTAAt < 1:517966/69‑1 (MQ=255)
ttGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGAc > 1:2910220/1‑69 (MQ=255)
ttGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGAc > 1:1446687/1‑69 (MQ=255)
gTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCagag > 1:1462301/1‑68 (MQ=255)
gTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCagag > 1:2941748/1‑68 (MQ=255)
gTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCagag > 1:2162732/1‑68 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:487201/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:2423460/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:1059978/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:1846877/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:1392887/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATggg < 1:1750019/69‑1 (MQ=255)
ggCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTa > 1:3366557/1‑43 (MQ=25)
ggCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTa > 1:1109369/1‑43 (MQ=25)
ggCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTa > 1:2748530/1‑43 (MQ=25)
ggCGACGTTGGCGAGAAATGCGGAGTCAGCCGGACCGAGGTTa > 1:651304/1‑43 (MQ=25)
gACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGAtc > 1:2528474/1‑69 (MQ=255)
gACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGAtc > 1:1695774/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:1726768/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:2612548/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:608916/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:2255308/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:1244584/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:839331/1‑69 (MQ=255)
ggCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCttcttc > 1:1280387/1‑69 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:102184/69‑1 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:432860/69‑1 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:351698/69‑1 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:843732/69‑1 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:1747448/69‑1 (MQ=255)
gtgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:1775995/69‑1 (MQ=255)
tgGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg < 1:1954179/68‑1 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg > 1:312132/1‑67 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg > 1:1279087/1‑67 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg > 1:1476283/1‑67 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg > 1:2823281/1‑67 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCgg > 1:2465538/1‑67 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCg > 1:3249827/1‑66 (MQ=255)
ggAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTACGTTGTGGCgg > 1:166955/1‑67 (MQ=255)
|
GAGTTGCCATTGTTCGGCGCTGTGGGCGACGTTGGCGAGAAATGTGGAATCAGCCGGGCCAAGGTTAATGACGCCAGAGCGTACAAAAATGGGATCTTCTTCGTTGTGGCGG > minE/711079‑711190
|
| 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
