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 |
821,766 |
G→A |
41.3% |
intergenic (‑303/+151) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,766 | 0 | G | A | 41.3%
| 58.0
/ 69.5
| 63 | intergenic (‑303/+151) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base G (17/20); new base A (12/14); total (29/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.00e-01 |
ATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGAC > minE/821697‑821835
|
aTCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCg < 1:743751/70‑1 (MQ=39)
aTCCCTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGc < 1:2768597/71‑1 (MQ=14)
tCCCTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGct < 1:1387584/71‑1 (MQ=14)
ccTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:1129744/62‑1 (MQ=11)
cTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTg < 1:2463129/71‑1 (MQ=17)
cTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTg < 1:3720935/71‑1 (MQ=255)
tGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAg > 1:583189/1‑63 (MQ=14)
tGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTg > 1:3138346/1‑70 (MQ=255)
gAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:3123666/1‑71 (MQ=17)
aaTGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgat > 1:3682894/1‑70 (MQ=17)
aaTGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgat > 1:240717/1‑70 (MQ=17)
aaTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGctc > 1:23727/1‑65 (MQ=255)
aaTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatg < 1:3007666/71‑1 (MQ=255)
aTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatga < 1:1700420/71‑1 (MQ=255)
aTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatga < 1:1275452/71‑1 (MQ=255)
tGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatgag < 1:3071787/71‑2 (MQ=18)
gCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCtt < 1:2229396/70‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct < 1:3878576/56‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct < 1:1323280/56‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTc < 1:57373/70‑1 (MQ=255)
tgaaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatg < 1:3052251/58‑1 (MQ=21)
tAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGc > 1:2248697/1‑71 (MQ=255)
gaaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTc > 1:1806389/2‑66 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatga > 1:1164136/1‑59 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:2005732/1‑56 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:2556154/1‑56 (MQ=21)
aaGAGTGCATTCCGGTATTTCAACAGCTGTTACAGTCATTTCATGAGAGCTCTGgatga > 1:2361553/1‑59 (MQ=21)
aaGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGtt > 1:3570292/1‑40 (MQ=40)
agTGCATTCCGGTTTTTCAACAGCTGTTACAGTCAttt < 1:540275/38‑1 (MQ=11)
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)
ttCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:3387662/35‑1 (MQ=17)
ttCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:410323/35‑1 (MQ=17)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:2617331/1‑71 (MQ=38)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:1973720/1‑71 (MQ=38)
tCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCa > 1:2305213/1‑70 (MQ=255)
cGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct > 1:2953427/1‑39 (MQ=255)
cGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct > 1:2129108/1‑39 (MQ=255)
ggCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCt > 1:2577897/1‑57 (MQ=255)
gtttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAtt < 1:3696396/69‑1 (MQ=255)
gtttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAtt < 1:1741522/69‑1 (MQ=255)
tttttCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCAATAttt < 1:3726787/70‑1 (MQ=255)
cTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgat > 1:3242477/1‑42 (MQ=255)
ttttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatga < 1:1992919/43‑1 (MQ=255)
ttttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt < 1:3699251/60‑1 (MQ=255)
ttttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAat < 1:1490457/66‑1 (MQ=255)
tttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt > 1:546941/1‑59 (MQ=255)
tttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGtt > 1:3897959/1‑59 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTc > 1:345701/1‑47 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTAc < 1:2325240/70‑1 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTAc < 1:1920230/70‑1 (MQ=255)
ttCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACt > 1:3843171/1‑71 (MQ=255)
cAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACtt < 1:1277908/70‑1 (MQ=255)
cAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACtt < 1:2223815/70‑1 (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)
|
ATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAATATTTACTTGTGGAAGAGATAAAGAC > minE/821697‑821835
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
