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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,358,400 |
G→A |
39.7% |
A362T (GCT→ACT) |
glpA → |
sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,358,400 | 0 | G | A | 39.7%
| 54.5
/ 75.1
| 68 | A362T (GCT→ACT) | glpA | sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base G (14/27); new base A (10/17); total (24/44) |
| 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 |
TGAACGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACT > W3110S.gb/2358333‑2358459
|
tGAACGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCt > 1:3262406/1‑70 (MQ=255)
aaCGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGa < 1:939553/70‑1 (MQ=255)
aaCGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGa < 1:4056853/70‑1 (MQ=255)
aaCGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGa < 1:1573309/70‑1 (MQ=255)
aCGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAAt < 1:1646965/71‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATg > 1:2587166/1‑71 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATg > 1:1547508/1‑71 (MQ=255)
cgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATggg > 1:3099153/1‑71 (MQ=255)
cgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATggg > 1:3261395/1‑71 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCt < 1:3030319/71‑1 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCt < 1:1645779/71‑1 (MQ=255)
tGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTa < 1:1893016/71‑1 (MQ=255)
tGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTa < 1:2383475/71‑1 (MQ=255)
gTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTAcc < 1:3752230/71‑1 (MQ=255)
cTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGa > 1:1628095/1‑71 (MQ=255)
cTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGa > 1:4229421/1‑71 (MQ=255)
cTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGa > 1:3627640/1‑71 (MQ=255)
tGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGAc > 1:922455/1‑71 (MQ=255)
cGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCgg < 1:684620/71‑1 (MQ=255)
cGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCgg > 1:1259274/1‑71 (MQ=255)
cGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCgg > 1:1265390/1‑71 (MQ=255)
ggATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGt < 1:4398377/71‑1 (MQ=255)
tttATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATg < 1:2459821/71‑1 (MQ=255)
tttATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATg < 1:3694580/71‑1 (MQ=255)
tttATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATg < 1:640508/71‑1 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATggg > 1:3020002/1‑51 (MQ=255)
accatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCa < 1:825175/70‑1 (MQ=255)
accatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCa > 1:2931035/1‑70 (MQ=255)
atcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACt < 1:3259035/71‑1 (MQ=255)
atcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACt < 1:2930791/71‑1 (MQ=255)
tcaccGGTGGCAAACTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTg > 1:3779243/1‑71 (MQ=255)
ccGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:1320159/71‑1 (MQ=255)
tGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCaaa < 1:1055565/61‑1 (MQ=255)
tGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCaaa < 1:1043536/61‑1 (MQ=255)
tGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCaaa < 1:2682803/61‑1 (MQ=255)
aaCTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:1319887/1‑71 (MQ=255)
aaCTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc < 1:3739276/71‑1 (MQ=255)
aaCTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgagc > 1:944984/1‑71 (MQ=255)
aaCTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGt > 1:3496296/1‑46 (MQ=255)
aCTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGcc < 1:3682993/71‑1 (MQ=255)
cTGATGACCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAaca > 1:222086/1‑64 (MQ=255)
atgaCCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTg < 1:4918785/71‑1 (MQ=255)
atgaCCTATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTg < 1:4232842/71‑1 (MQ=255)
tgaCCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATg < 1:5100001/43‑1 (MQ=255)
aCCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTAc < 1:368778/71‑1 (MQ=255)
aCCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTAc < 1:2003423/71‑1 (MQ=255)
cTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:721118/52‑1 (MQ=255)
cTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:2130123/52‑1 (MQ=255)
cTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:4733777/52‑1 (MQ=255)
cTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:4054979/52‑1 (MQ=255)
cTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:4269912/52‑1 (MQ=255)
tATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCaa < 1:947283/44‑1 (MQ=255)
tATCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCaa < 1:3266548/44‑1 (MQ=255)
aTCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGa > 1:1571072/1‑69 (MQ=255)
aTCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACt > 1:2043388/1‑71 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCTGTATGCCGCAAACTGGGc < 1:110747/49‑1 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTg > 1:209080/1‑46 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:2937066/49‑1 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTAc < 1:3634415/66‑1 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGAc < 1:1460409/69‑1 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACt < 1:4279068/70‑1 (MQ=255)
tCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACt < 1:866307/70‑1 (MQ=255)
tCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCa < 1:2517172/41‑1 (MQ=255)
tCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCa < 1:2874291/41‑1 (MQ=255)
tCGGCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCAAAc > 1:1622434/1‑44 (MQ=255)
cGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTggg > 1:809028/1‑47 (MQ=255)
cGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGc < 1:3574304/48‑1 (MQ=255)
ggCTGATGACTGAATGGGCTACCGACGCGGTATGCCGCaaa > 1:2754237/1‑41 (MQ=255)
|
TGAACGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACT > W3110S.gb/2358333‑2358459
|
| 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
