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 |
|
A3 F2 I1 R1
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
2,447,032 |
C→A |
27.7% |
pseudogene (1024/1647 nt) |
ilvG ← |
Mutation in protein compared to W3110: p.Glu327_Ilefs*223 Restoration of IlvG found in MG1655 (548 amino acids), fusion of N‑ter and C‑ter fragments ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 2,447,032 | 0 | C | A | 27.7%
| 148.0
/ 42.3
| 72 | pseudogene (1024/1647 nt) | ilvG | Mutation in protein compared to W3110: p.Glu327_Ilefs*223 Restoration of IlvG found in MG1655 (548 amino acids), fusion of N‑ter and C‑ter fragments ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II |
| Reads supporting (aligned to +/- strand): ref base C (21/31); new base A (12/8); total (33/39) |
| Fisher's exact test for biased strand distribution p-value = 1.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
ACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCT > Exported/2446972‑2447099
|
aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat < 1:5173303/69‑1 (MQ=255)
aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat < 1:356536/69‑1 (MQ=255)
aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat < 1:4348284/69‑1 (MQ=255)
aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat < 1:1376178/69‑1 (MQ=255)
aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat < 1:957482/69‑1 (MQ=255)
ttttAACAACAACGGCGCGTAGATAGCTTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGc < 1:4385217/70‑1 (MQ=255)
ttttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGc < 1:1128517/70‑1 (MQ=255)
ttttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGc < 1:3908789/70‑1 (MQ=255)
ttttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCt > 1:4060920/1‑71 (MQ=255)
tttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcatca < 1:4691927/63‑1 (MQ=255)
tttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcatca < 1:4164695/63‑1 (MQ=255)
atcaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCa < 1:4025463/69‑1 (MQ=255)
aacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCa < 1:47395/71‑1 (MQ=255)
aacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCa < 1:4019423/71‑1 (MQ=255)
aacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCa < 1:2457290/71‑1 (MQ=255)
acGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgtgt < 1:2806725/71‑1 (MQ=255)
acGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgtgt < 1:2917133/71‑1 (MQ=255)
cGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTa < 1:934855/71‑1 (MQ=255)
cGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTa < 1:913713/71‑1 (MQ=255)
cGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTa < 1:3987740/71‑1 (MQ=255)
cgTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGc < 1:3102548/71‑1 (MQ=255)
gTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGcc < 1:3046489/71‑1 (MQ=255)
gTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGc < 1:2282211/70‑1 (MQ=255)
gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt > 1:2723095/1‑71 (MQ=255)
gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt > 1:1227460/1‑71 (MQ=255)
aGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCt > 1:2472992/1‑47 (MQ=255)
aGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAt > 1:3202408/1‑71 (MQ=255)
aGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAt > 1:1156933/1‑71 (MQ=255)
aGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAt > 1:3341492/1‑71 (MQ=255)
aGCGTCACCAGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAt > 1:1204739/1‑71 (MQ=255)
gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:3775739/71‑1 (MQ=255)
gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:990658/71‑1 (MQ=255)
gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:3203704/71‑1 (MQ=255)
gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:3504149/71‑1 (MQ=255)
gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:4791185/71‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:5040860/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:4477580/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:3824236/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:3301418/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:1565021/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:2600424/49‑1 (MQ=255)
tCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:581126/49‑1 (MQ=255)
cACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTgcgcgc < 1:291868/48‑1 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGata < 1:3454894/70‑1 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:2103439/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:1210790/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:98786/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:4290368/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:177476/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:1797936/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:1850842/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:1964121/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:4977332/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:266362/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:3561136/1‑49 (MQ=255)
aCCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAg > 1:3381303/1‑49 (MQ=255)
cGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCTCAGTGTAGCTGCCAGTCATTGATAttt < 1:467162/71‑1 (MQ=255)
gggATGGTCGTAACGCCAGGCATGTTCATCACGCACCTGCGCGCAGTGTAGCTGCCAGTCAt > 1:4628820/1‑62 (MQ=255)
ggATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTaa > 1:1132825/1‑71 (MQ=255)
ggATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTa > 1:3410924/1‑70 (MQ=255)
gTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgct > 1:2952270/1‑71 (MQ=255)
gTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgct > 1:224739/1‑71 (MQ=255)
gTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctgct > 1:4193882/1‑71 (MQ=255)
gTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctgct > 1:1386039/1‑71 (MQ=255)
gTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctgct > 1:1201697/1‑71 (MQ=255)
tAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGctgctg < 1:998092/71‑1 (MQ=255)
aCGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGt < 1:1737256/70‑1 (MQ=255)
cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc > 1:4038312/1‑71 (MQ=255)
cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc > 1:1357983/1‑71 (MQ=255)
aGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCt > 1:1344415/1‑71 (MQ=255)
gCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGat > 1:3450071/1‑47 (MQ=255)
gCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGat > 1:2625337/1‑47 (MQ=255)
|
ACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCT > Exported/2446972‑2447099
|
| 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
