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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
821,788 |
T→G |
37.8% |
intergenic (‑325/+129) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,788 | 0 | T | G | 37.8%
| 16.4
/ 62.2
| 53 | intergenic (‑325/+129) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base T (16/17); new base G (10/10); total (26/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
GCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGT > minE/821723‑821854
|
gCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCtt < 1:2229396/70‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTc < 1:57373/70‑1 (MQ=255)
tAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGc > 1:2248697/1‑71 (MQ=255)
gaaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTc > 1:1806389/2‑66 (MQ=21)
gTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCtt < 1:3690362/60‑1 (MQ=255)
cATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCGAGCTCggg > 1:161017/1‑67 (MQ=255)
aTTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCt > 1:661338/1‑55 (MQ=25)
aTTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCt < 1:2248109/55‑1 (MQ=255)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:2617331/1‑71 (MQ=38)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:1973720/1‑71 (MQ=38)
tCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCa > 1:2305213/1‑70 (MQ=255)
ggCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCt > 1:2577897/1‑57 (MQ=255)
gtttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAtt < 1:1741522/69‑1 (MQ=255)
gtttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAtt < 1:3696396/69‑1 (MQ=255)
tttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAttt < 1:3726787/70‑1 (MQ=255)
ttttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt < 1:3699251/60‑1 (MQ=255)
ttttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAat < 1:1490457/66‑1 (MQ=255)
tttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt > 1:3897959/1‑59 (MQ=255)
tttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt > 1:546941/1‑59 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTc > 1:345701/1‑47 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTAc < 1:1920230/70‑1 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTAc < 1:2325240/70‑1 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACt > 1:3843171/1‑71 (MQ=255)
cAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACtt < 1:2223815/70‑1 (MQ=255)
cAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACtt < 1:1277908/70‑1 (MQ=255)
aGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAg > 1:3075574/1‑44 (MQ=255)
aGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTgg > 1:847166/1‑70 (MQ=255)
cTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAag < 1:1648264/71‑1 (MQ=255)
tGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTgg < 1:1008128/64‑1 (MQ=255)
acAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGAt < 1:2122423/69‑1 (MQ=255)
aGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATaaa < 1:105634/71‑1 (MQ=255)
aGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAttt < 1:29036/53‑1 (MQ=255)
cGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCgg > 1:119851/1‑37 (MQ=255)
gTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAat > 1:3023663/1‑45 (MQ=255)
gTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGAc > 1:1774006/1‑70 (MQ=255)
tttCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTtgt < 1:1373198/54‑1 (MQ=255)
tttCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACaa < 1:3172004/71‑1 (MQ=255)
ttCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATaaa > 1:773758/1‑65 (MQ=255)
tCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATAtt > 1:403520/1‑45 (MQ=255)
tCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACaaa > 1:278430/1‑70 (MQ=255)
tCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTAc > 1:3384180/1‑48 (MQ=255)
tCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTAc > 1:10341/1‑48 (MQ=255)
tCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTgg > 1:3869755/1‑54 (MQ=255)
aTGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAAt < 1:3394965/71‑1 (MQ=255)
tGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATg < 1:662431/71‑1 (MQ=255)
gAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATg < 1:2399610/70‑1 (MQ=255)
gTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGaa > 1:1656257/1‑50 (MQ=255)
gTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGcc < 1:3825580/71‑1 (MQ=255)
ctctGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGc < 1:1552748/70‑1 (MQ=255)
ctctGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa < 1:2069879/71‑1 (MQ=255)
ctGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCa < 1:1268934/69‑1 (MQ=255)
ctGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATaaa > 1:3393867/1‑53 (MQ=255)
ctGGATGAGGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCg > 1:807849/1‑67 (MQ=255)
gatgatGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTg > 1:668563/1‑71 (MQ=255)
atgatgCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGt > 1:535585/1‑71 (MQ=255)
atgatgCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGt < 1:2425254/71‑1 (MQ=255)
tgaggCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGTGATAAAGACAAAAATGGCCGCAGGCTGt > 1:1029920/1‑70 (MQ=255)
atgCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGaa < 1:3756016/38‑1 (MQ=255)
atgCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCt < 1:2162208/66‑1 (MQ=255)
|
GCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGACAAAAATGGCCGCAGGCTGT > minE/821723‑821854
|
| 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
