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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,177,469 |
G→A |
57.3% |
A9V (GCG→GTG) |
gspK ← |
general secretory pathway component, cryptic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,177,469 | 0 | G | A | 57.3%
| 29.4
/ 97.5
| 75 | A9V (GCG→GTG) | gspK | general secretory pathway component, cryptic |
| Reads supporting (aligned to +/- strand): ref base G (22/10); new base A (24/19); total (46/29) |
| Fisher's exact test for biased strand distribution p-value = 3.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.00e-01 |
AACTGAGCGTCATGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGACTCTTC > W3110S.gb/4177404‑4177534
|
atcTGAGCGTCATGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGcacg < 1:2724898/66‑1 (MQ=255)
cATGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCgttg > 1:733744/1‑69 (MQ=255)
cATGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCgtt > 1:610172/1‑68 (MQ=255)
aTGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCgttg > 1:1639303/1‑68 (MQ=255)
tGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt > 1:2312486/1‑69 (MQ=255)
gTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt < 1:3716712/68‑1 (MQ=255)
gTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt < 1:1222016/68‑1 (MQ=255)
gTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt < 1:3584922/68‑1 (MQ=255)
gTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt < 1:3580547/68‑1 (MQ=255)
gTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCgttgtt < 1:1581322/68‑1 (MQ=255)
tgctgcCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat < 1:750100/68‑1 (MQ=255)
gcCAGAGCAGCCATGAGCGCCAGTAACATGAGTAGAATGAGCAGCGCGACGCCGCGTTGTTCattat < 1:67938/67‑1 (MQ=255)
gcCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCattat < 1:1032423/67‑1 (MQ=255)
ccAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCa > 1:860956/1‑69 (MQ=255)
ccAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCa > 1:3716011/1‑69 (MQ=255)
gagCAGACATGAGGGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCgttgtt > 1:3632002/1‑57 (MQ=255)
cagcCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGtt > 1:3477494/1‑68 (MQ=255)
agcCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGttat < 1:1877073/69‑1 (MQ=255)
agcCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGttat < 1:3260861/69‑1 (MQ=255)
gcCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGttatt > 1:151539/1‑69 (MQ=255)
gcCATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGttat > 1:1809946/1‑68 (MQ=255)
cATGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTtattat > 1:2361453/1‑69 (MQ=255)
aTGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTattatt > 1:3098139/1‑69 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat < 1:686665/51‑1 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat < 1:1845713/51‑1 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat < 1:1901520/51‑1 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat < 1:2107952/51‑1 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat < 1:339885/51‑1 (MQ=255)
tGAGCGCCAGTAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTc > 1:3599972/1‑69 (MQ=255)
tAACATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCg < 1:568976/69‑1 (MQ=255)
aaCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat > 1:1639215/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat > 1:3244300/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat > 1:380008/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat > 1:3213045/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCat > 1:2720682/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat > 1:2719407/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat > 1:1031831/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCat > 1:2303377/1‑40 (MQ=255)
aaCATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGcc < 1:541739/64‑1 (MQ=255)
aCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGt > 1:2030080/1‑68 (MQ=255)
aCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGt > 1:2935235/1‑68 (MQ=255)
aCATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGt > 1:141014/1‑68 (MQ=255)
aCATGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGt > 1:3591235/1‑49 (MQ=255)
aCATGAGTACAATGAGCAGCACGACGCAGCGTTGTTCATTATTCATGGt > 1:1654298/1‑49 (MQ=255)
aTGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCt > 1:1030642/1‑68 (MQ=255)
aTGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTg > 1:543254/1‑69 (MQ=255)
aTGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTg < 1:3069696/69‑1 (MQ=255)
tGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCAt > 1:1243105/1‑43 (MQ=255)
tGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGa < 1:2319799/69‑1 (MQ=255)
tGAGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGa < 1:3405778/69‑1 (MQ=255)
aGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGcc < 1:2462816/58‑1 (MQ=255)
aGTACAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGcc < 1:1472018/58‑1 (MQ=255)
cAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGc > 1:1044974/1‑57 (MQ=255)
cAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGc > 1:1948928/1‑57 (MQ=255)
cAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGc > 1:2883506/1‑57 (MQ=255)
cAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGc > 1:1170389/1‑57 (MQ=255)
cAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGc > 1:454244/1‑69 (MQ=255)
cAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGc > 1:2258835/1‑69 (MQ=255)
cAATGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGc > 1:449902/1‑69 (MQ=255)
aTGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCg < 1:3334681/68‑1 (MQ=255)
tGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGAc > 1:1153469/1‑69 (MQ=255)
tGAGCAGCACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGAc > 1:334169/1‑69 (MQ=255)
agcagcGCGAGGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc > 1:3306821/1‑69 (MQ=255)
agcagcGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc > 1:1610499/1‑69 (MQ=255)
agcagcGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc > 1:3466252/1‑69 (MQ=255)
agcagcGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGAct > 1:2735344/1‑68 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTattatt > 1:2813278/1‑42 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTattatt > 1:2617691/1‑42 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTattatt > 1:2613292/1‑42 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc < 1:202096/69‑1 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc < 1:3678460/69‑1 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc < 1:1415813/69‑1 (MQ=255)
agcagcACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActc < 1:3495667/69‑1 (MQ=255)
cagcGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGActct < 1:1090808/68‑1 (MQ=255)
cagcACGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGGCTGAGCTGGCGACtctt < 1:1461804/69‑1 (MQ=255)
agcGCGACGCCGCGTTGTTCATTATTCATGGTTATTACTCCCGGCCTGCGTCTGAGCTGGCGACtcttc > 1:2652708/1‑69 (MQ=255)
|
AACTGAGCGTCATGTCTGCTGCCAGAGCAGCCATGAGCGCCAGTAACATGAGTACAATGAGCAGCGCGACGCCGCGTTGTTCATTATTCATGGTTATTATTCCCGGCCTGCGTCTGAGCTGGCGACTCTTC > W3110S.gb/4177404‑4177534
|
| 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
