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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,491,067 |
G→A |
37.2% |
V56V (GTG→GTA) |
yjgP → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,491,067 | 0 | G | A | 37.2%
| 36.5
/ 41.4
| 43 | V56V (GTG→GTA) | yjgP | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (16/11); new base A (12/4); total (28/15) |
| Fisher's exact test for biased strand distribution p-value = 3.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACT > W3110S.gb/4491000‑4491135
|
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:2905316/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:2897927/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:3039669/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:2370796/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:2229346/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:1389404/1‑71 (MQ=255)
tCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:1224922/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGaaa > 1:1941065/1‑70 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:678203/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:1041597/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:2687168/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:2631459/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:2577734/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:2270899/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:19747/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:1449199/1‑71 (MQ=255)
ggCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAAt > 1:1446824/1‑71 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGc < 1:1744623/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGc < 1:2988268/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGc < 1:680991/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGc < 1:318022/71‑1 (MQ=255)
ccGGCGAATCTGGTTCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAg > 1:1231147/1‑71 (MQ=255)
ccGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAg > 1:1188722/1‑71 (MQ=255)
ctcCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTg > 1:2430343/1‑58 (MQ=255)
ctcCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGtt > 1:2901802/1‑60 (MQ=255)
ctcCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGtt > 1:873206/1‑60 (MQ=255)
cTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCtgat < 1:1002060/71‑1 (MQ=255)
cTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCtgat < 1:158594/71‑1 (MQ=255)
cTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCtgat < 1:1162385/71‑1 (MQ=255)
cTTCTCGGGTTGGGCGGGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCtgat < 1:3326337/71‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:3219572/68‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:953813/68‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:2117694/68‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:1823028/68‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:1044828/68‑1 (MQ=255)
gggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:1044818/68‑1 (MQ=255)
ggTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:485390/67‑1 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:2985374/1‑71 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:2846853/1‑71 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:269608/1‑71 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:2686657/1‑71 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:1284124/1‑71 (MQ=255)
gTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACt > 1:1006927/1‑71 (MQ=255)
|
TCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGACGCTGGGCAAACT > W3110S.gb/4491000‑4491135
|
| 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
