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 |
3,587,198 |
C→T |
53.5% |
E840K (GAA→AAA) |
polA ← |
fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,587,198 | 0 | C | T | 53.5%
| 2.2
/ 61.5
| 43 | E840K (GAA→AAA) | polA | fused DNA polymerase I 5'‑>3' exonuclease, 3'‑>5' polymerase and 3'‑>5' exonuclease |
| Reads supporting (aligned to +/- strand): ref base C (18/2); new base T (13/10); total (31/12) |
| Fisher's exact test for biased strand distribution p-value = 1.93e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACA > W3110S.gb/3587137‑3587248
|
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGc > 1:1640231/1‑68 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:850103/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:811548/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:310835/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:221094/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:1436987/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:1962874/1‑70 (MQ=255)
atcGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTg > 1:1162709/1‑70 (MQ=255)
cGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCa > 1:536035/1‑70 (MQ=255)
ccGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCacgac < 1:148154/71‑1 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAg < 1:1827805/71‑1 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAg < 1:693069/71‑1 (MQ=255)
tttGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAg < 1:688824/71‑1 (MQ=255)
tGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCa > 1:326186/1‑71 (MQ=255)
cATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:1219720/1‑64 (MQ=255)
cATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:1877540/1‑64 (MQ=255)
cATTGGCGCGTTAATGGATGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGata > 1:1367405/1‑64 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAg < 1:206700/71‑1 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:1745157/1‑68 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:1703753/1‑68 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:1507422/1‑68 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:468564/1‑68 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:453689/1‑68 (MQ=255)
aTTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCgg > 1:407455/1‑68 (MQ=255)
ttGGCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAg < 1:1901738/70‑1 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:1611827/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:599620/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:555250/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:36197/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCacgac > 1:1377432/1‑37 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGAt > 1:1289430/1‑70 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGAt > 1:1696073/1‑70 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGAt > 1:835138/1‑70 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:1494457/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:528289/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:1247248/1‑71 (MQ=255)
ggCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATa > 1:1751417/1‑71 (MQ=255)
cgcgTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1544441/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1920576/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1275763/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTTAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1273485/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:158396/71‑1 (MQ=255)
cgcgTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACa < 1:1756897/71‑1 (MQ=255)
|
ATCGCCCGTTTGATAATGTCGGCGGCGGTTCCCTGCATTGGCGCGTTAATGGCTGCACGTTCAGCCGCTGCACGACGAGCACCATTGCTGGATTTGATATCCGGCAGATACA > W3110S.gb/3587137‑3587248
|
| 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
