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 |
3,735,429 |
G→A |
24.3% |
A323T (GCA→ACA) |
bglH → |
carbohydrate‑specific outer membrane porin, cryptic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,735,429 | 0 | G | A | 24.3%
| 230.5
/ 71.8
| 115 | A323T (GCA→ACA) | bglH | carbohydrate‑specific outer membrane porin, cryptic |
| Reads supporting (aligned to +/- strand): ref base G (28/59); new base A (14/14); total (42/73) |
| Fisher's exact test for biased strand distribution p-value = 1.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 116 total aligned reads displayed.
TAAAGATATCCCGTTATGGGATAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGTTTGGCA > W3110S.gb/3735359‑3735495
|
ccGTTATGGGATAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGaaaa < 1:4610366/71‑1 (MQ=255)
ccGTTATGGGATAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGaaa > 1:849155/1‑70 (MQ=255)
aTGGGATAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGAt > 1:1773937/1‑70 (MQ=255)
tAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAgg < 1:4525791/71‑1 (MQ=255)
aaGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGa < 1:367304/61‑1 (MQ=255)
aaGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGa > 1:3024582/1‑70 (MQ=255)
aaGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGa < 1:3223853/70‑1 (MQ=255)
aaGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGa > 1:2429962/1‑70 (MQ=255)
aGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGata < 1:4837451/71‑1 (MQ=255)
aGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGata < 1:1691782/71‑1 (MQ=255)
aGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGa < 1:3925143/69‑1 (MQ=255)
gCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGata < 1:2819653/70‑1 (MQ=255)
gCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGataa > 1:139008/1‑71 (MQ=255)
ccACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataat < 1:2347771/71‑1 (MQ=255)
ccACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataat < 1:4677896/71‑1 (MQ=255)
ccACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataat < 1:567058/71‑1 (MQ=255)
ccACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataat < 1:1809687/71‑1 (MQ=255)
ccACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataat < 1:2341677/71‑1 (MQ=255)
cACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGataat < 1:2301548/70‑1 (MQ=255)
ccTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAAc < 1:4140110/71‑1 (MQ=255)
cTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataa < 1:3291107/66‑1 (MQ=255)
cTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGataa < 1:3543534/66‑1 (MQ=255)
aaTGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACggg < 1:771389/70‑1 (MQ=255)
aaTGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACgg < 1:3190855/69‑1 (MQ=255)
aTGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACggg < 1:765330/69‑1 (MQ=255)
gTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtatt < 1:518105/70‑1 (MQ=255)
gTAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATc > 1:3825163/1‑38 (MQ=255)
tAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:4574955/71‑1 (MQ=255)
tAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:1410845/71‑1 (MQ=255)
tAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:4316699/71‑1 (MQ=255)
tAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:316465/71‑1 (MQ=255)
tAAGTGGTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:3135358/71‑1 (MQ=255)
aaGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGaa > 1:191460/1‑40 (MQ=255)
aaGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:3515719/70‑1 (MQ=255)
gTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGa < 1:2224546/37‑1 (MQ=255)
gTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGa < 1:3860887/37‑1 (MQ=255)
ggTCGTTATGTCACGGCAAACGAAAGCGCATCGGaaa > 1:4278911/1‑37 (MQ=255)
ggTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGAtaataa > 1:3857193/1‑56 (MQ=255)
ggTCGTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTg > 1:5007921/1‑71 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATa > 1:557458/1‑42 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATa > 1:2705211/1‑42 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATc < 1:419041/45‑1 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATc < 1:2896518/45‑1 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATc < 1:538522/45‑1 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTg < 1:790406/70‑1 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTg > 1:2320833/1‑70 (MQ=255)
gTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTg < 1:3637152/70‑1 (MQ=255)
cGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATATTCa > 1:1023851/1‑44 (MQ=255)
cGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATAAg > 1:4201281/1‑45 (MQ=255)
gTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACTGGTATTATGACTGGa > 1:2061286/1‑69 (MQ=255)
gTTATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGa > 1:5054673/1‑64 (MQ=255)
ttATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATa < 1:4559614/38‑1 (MQ=255)
ttATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAAt < 1:3238433/40‑1 (MQ=255)
ttATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGaaa < 1:3230877/70‑1 (MQ=255)
ttATGTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtat < 1:4807968/58‑1 (MQ=255)
aTGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACggg < 1:2763232/53‑1 (MQ=255)
aTGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATg > 1:1216930/1‑60 (MQ=255)
aTGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGa > 1:2061584/1‑61 (MQ=255)
aTGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGa < 1:3594183/70‑1 (MQ=255)
aTGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGa > 1:1993160/1‑70 (MQ=255)
tGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATa < 1:1308821/71‑1 (MQ=255)
tGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATa < 1:2631292/71‑1 (MQ=255)
tGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATa < 1:2625514/71‑1 (MQ=255)
gTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGa < 1:1868439/68‑1 (MQ=255)
gTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGa < 1:2405655/68‑1 (MQ=255)
gTCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGataat < 1:1451666/45‑1 (MQ=255)
tCACGGCAAACGAAAGCGCATCGGAAAAAGATAAt < 1:735396/35‑1 (MQ=255)
tCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtatta > 1:2628303/1‑55 (MQ=255)
tCACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtatta < 1:2014134/55‑1 (MQ=255)
cACGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCt > 1:2778607/1‑71 (MQ=255)
aCGGCAAACGAAAGCGCATCGGAAAAAGATAATCAg > 1:4038271/1‑36 (MQ=255)
aCGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:4968455/1‑54 (MQ=255)
aCGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:1381907/1‑54 (MQ=255)
aCGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat < 1:4212151/54‑1 (MQ=255)
aCGGCAAACGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTg > 1:1627094/1‑71 (MQ=255)
ggCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAAc > 1:277652/1‑43 (MQ=255)
gCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGa > 1:188217/1‑70 (MQ=255)
cAAACGAAAGCGCATCGGAAAAAGATAATCATGATAATAACGGGTATTATGACTGGAAAGATACCTGGATg < 1:1318288/71‑1 (MQ=255)
cAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATg < 1:4573515/71‑1 (MQ=255)
cAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATg < 1:3096753/71‑1 (MQ=255)
aaaCGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGt < 1:76130/71‑1 (MQ=255)
aaCGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtatt < 1:2624730/46‑1 (MQ=255)
aaCGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGt < 1:4764073/70‑1 (MQ=255)
aaCGAAAGCACATCGGAAAAAGATAATCAGGATAATAACg > 1:4485778/1‑40 (MQ=255)
aCGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtat < 1:1417986/44‑1 (MQ=255)
aCGAAAGCACATCGGAAAAAGATAATCAGGAtaataa > 1:3551284/1‑37 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACggg < 1:2246813/40‑1 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACggg < 1:3013207/40‑1 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:1460860/1‑46 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:3201227/1‑46 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTg < 1:1529203/63‑1 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTg < 1:2589735/63‑1 (MQ=255)
cGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTg < 1:2191107/63‑1 (MQ=255)
cGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:3269955/1‑46 (MQ=255)
cGAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGtattat > 1:1220238/1‑46 (MQ=255)
gAAAGCACATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGaaa < 1:2736343/54‑1 (MQ=255)
aaGCGCATCGGAAAAAGATAATCAGGTTAATAACGGGTATTATGACt > 1:4589217/1‑47 (MQ=255)
aaGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACt > 1:3891224/1‑47 (MQ=255)
aaGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGTTTGGca < 1:5120117/71‑1 (MQ=255)
aaGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGTTTGGca < 1:3168397/71‑1 (MQ=255)
|
TAAAGATATCCCGTTATGGGATAAAGCCACCTTAATGGTAAGTGGTCGTTATGTCACGGCAAACGAAAGCGCATCGGAAAAAGATAATCAGGATAATAACGGGTATTATGACTGGAAAGATACCTGGATGTTTGGCA > W3110S.gb/3735359‑3735495
|
| 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
