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 |
827,597 |
C→T |
49.0% |
P26P (CCG→CCA) |
ybhS ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 827,597 | 0 | C | T | 49.0%
| ‑0.6
/ 72.2
| 51 | P26P (CCG→CCA) | ybhS | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (15/11); new base T (18/7); total (33/18) |
| Fisher's exact test for biased strand distribution p-value = 3.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCG > W3110S.gb/827531‑827664
|
gTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:871257/71‑1 (MQ=255)
gTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:1268226/71‑1 (MQ=255)
gTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:1319836/71‑1 (MQ=255)
gTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:710354/71‑1 (MQ=255)
gTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:1564744/71‑1 (MQ=255)
ttAATGTCGTAACCAAAAATAAACAGCAGTAGCAGGGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:2668272/70‑1 (MQ=255)
ttAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGAt < 1:2926961/70‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:2420056/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:2588572/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:213351/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:26208/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:3040674/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:3108108/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:1819208/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:655729/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGa < 1:825814/71‑1 (MQ=255)
tAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGtc < 1:3080105/71‑1 (MQ=255)
tAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGtc < 1:1104803/71‑1 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:2224497/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:89594/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:134560/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:1417297/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:2096903/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:3110600/1‑70 (MQ=255)
gcagcGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGca > 1:1893508/1‑70 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2262483/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:855953/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:461452/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:420417/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2899563/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2184559/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2282367/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2192617/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:263690/1‑71 (MQ=255)
ccGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2718436/1‑71 (MQ=255)
cagCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGa > 1:2921273/3‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:570740/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:1069540/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:2422673/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:790955/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:2568789/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:680203/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:1534083/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:1950298/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:479964/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:283457/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:2074125/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:419774/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:2690806/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:1933442/1‑71 (MQ=255)
aCTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCAAAGCGCCCGTACGCGACGCCAGGACAGGATCg > 1:2093917/1‑71 (MQ=255)
|
GTTAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGACAGGATCG > W3110S.gb/827531‑827664
|
| 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
