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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,140,619 |
C→T |
39.6% |
A343T (GCA→ACA) |
hybC ← |
hydrogenase 2, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,140,619 | 0 | C | T | 39.6%
| 35.9
/ 51.0
| 48 | A343T (GCA→ACA) | hybC | hydrogenase 2, large subunit |
| Reads supporting (aligned to +/- strand): ref base C (16/13); new base T (10/9); total (26/22) |
| 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 |
ATTTCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTATT > W3110S.gb/3140562‑3140684
|
atTTCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTgc < 1:4063790/62‑1 (MQ=255)
tttCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCg > 1:289582/1‑70 (MQ=255)
tttCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCg > 1:27225/1‑70 (MQ=255)
tttCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGt > 1:3323720/1‑71 (MQ=255)
ttCCCGTAGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTc > 1:682185/1‑71 (MQ=255)
tCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTgcg > 1:1728679/1‑60 (MQ=255)
tCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTc > 1:1632334/1‑67 (MQ=255)
tCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTc > 1:2754037/1‑67 (MQ=255)
tCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTc < 1:1592510/70‑1 (MQ=255)
tCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTc < 1:2585759/70‑1 (MQ=255)
tCCCGTCGTCAGAACAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTc < 1:275611/70‑1 (MQ=255)
ccGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCtt < 1:1183524/70‑1 (MQ=255)
ccGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCtt < 1:3269620/70‑1 (MQ=255)
ccGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCtt < 1:3677695/70‑1 (MQ=255)
cgtcgtCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCTTta < 1:2917616/71‑1 (MQ=255)
gtcgtcAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTtat < 1:3686400/71‑1 (MQ=255)
aGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCTTTATACCAgg < 1:1814341/71‑1 (MQ=255)
aGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAgg < 1:3620661/71‑1 (MQ=255)
caaccaTCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCt > 1:1804122/1‑57 (MQ=255)
caaccaTCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGt > 1:1434252/1‑70 (MQ=255)
caaccaTCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTg < 1:236306/71‑1 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCtt < 1:2483602/52‑1 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCTTTATAc > 1:679914/1‑57 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCTTTATAc > 1:3199995/1‑57 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTcgc > 1:2282396/1‑71 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTcgc > 1:518466/1‑71 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTcgc > 1:2551841/1‑71 (MQ=255)
tcatAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTcg > 1:3025738/1‑70 (MQ=255)
atAAGCCGGAATGGTGGTGCCTTCCCACGGTGTCTGCGGCGCTTCGTCTTta > 1:2568213/1‑52 (MQ=255)
atAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCt > 1:4073784/1‑43 (MQ=255)
atAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCt > 1:3949243/1‑43 (MQ=255)
atAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCt > 1:2813097/1‑43 (MQ=255)
atAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCgcgc > 1:3263135/1‑71 (MQ=255)
tAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCgcgc > 1:3839009/1‑70 (MQ=255)
gtggtgCCTTCCCACGGTGTCTGCGGCGCTTCGTCtt < 1:1554849/37‑1 (MQ=255)
tgCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTg < 1:922757/71‑1 (MQ=255)
ttCCCACGGTGTCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCttt < 1:749517/53‑1 (MQ=255)
ttCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGa > 1:2735756/1‑39 (MQ=255)
ttCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTg < 1:3844648/57‑1 (MQ=255)
ttCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGa > 1:2099916/1‑68 (MQ=255)
tCCCACGGTGTCTGCGGCGCTTCGTCTTTATACCAGGAGTGCtt > 1:136533/1‑44 (MQ=255)
cccACGGTGTCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTcc > 1:4002159/1‑53 (MQ=255)
ccACGGTGTCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAgg < 1:3043411/70‑1 (MQ=255)
cACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTcgc > 1:1014758/1‑44 (MQ=255)
cACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTa < 1:2331502/71‑1 (MQ=255)
cACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTa < 1:1813821/71‑1 (MQ=255)
aaggTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCtt < 1:1636913/45‑1 (MQ=255)
cGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTAtt < 1:3747065/71‑1 (MQ=255)
ccTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTa > 1:3341806/1‑64 (MQ=255)
|
ATTTCCCGTCGTCAGACCAACCATCATAAGCCGGAATGGTGGTGCCTTCCCACGGTGCCTGCGGCGCTTCGTCTTTATACCAGGAGTGCTTCGCGCTTTCCTGAATGCCTTTGATCAGGTATT > W3110S.gb/3140562‑3140684
|
| 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
