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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,634,018 |
T→C |
22.7% |
V46A (GTA→GCA) |
yigF → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,634,018 | 0 | T | C | 22.7%
| 39.1
/ 9.2
| 22 | V46A (GTA→GCA) | yigF | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (5/12); new base C (2/3); total (7/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACATGGTTTTCCTGGATTCTGGGGGGCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGATATATTTATTTG > W3110S.gb/3633953‑3634083
|
aCATGGTTTTCCTGGATTCTGGGGGGCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGCAAGAc < 1:1445881/71‑1 (MQ=255)
cTGGATTCTGGGGGGCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAAc < 1:190650/70‑1 (MQ=255)
gCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAAttt < 1:1252842/71‑1 (MQ=255)
gCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAAttt < 1:1829963/71‑1 (MQ=255)
cAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTc < 1:517735/71‑1 (MQ=255)
aaCACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTc < 1:146197/70‑1 (MQ=255)
tAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:1215936/1‑70 (MQ=255)
tAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:817563/1‑70 (MQ=255)
tAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:644635/1‑70 (MQ=255)
tAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:1310395/1‑70 (MQ=255)
tAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:1119163/1‑70 (MQ=255)
tAAAGCATTAAAAGCAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:1860471/1‑70 (MQ=255)
tAAAGCATTAAAAGCAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGata > 1:273609/1‑70 (MQ=255)
aGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGATAtatt < 1:162739/71‑1 (MQ=255)
aGCATTAAAAGCAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGATAtatt < 1:150459/71‑1 (MQ=255)
aGCATTAAAAGCAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGATAtatt < 1:466155/71‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGa < 1:1459711/61‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGa < 1:771189/61‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGa < 1:931995/61‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGa < 1:970203/61‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCT‑‑TGTTCCTGGATATATTTATTTg < 1:1689612/71‑1 (MQ=255)
ttAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTCCTTTCTTCTGTTCCTGGa < 1:1780600/61‑1 (MQ=255)
|
ACATGGTTTTCCTGGATTCTGGGGGGCAACACCAGAATATAAAGCAGCATTTAAAGCATTAAAAGTAAGACAACGCTTAACTATTCAAATGAATTTCATTGCTTTCTTCTGTTCCTGGATATATTTATTTG > W3110S.gb/3633953‑3634083
|
| 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
