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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
312,081 |
G→A |
46.5% |
D264D (GAC→GAT) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 312,081 | 0 | G | A | 46.5%
| 10.4
/ 60.4
| 73 | D264D (GAC→GAT) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base G (18/21); new base A (19/15); total (37/36) |
| Fisher's exact test for biased strand distribution p-value = 4.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
CCGTTAAACTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTAG > minE/312025‑312148
|
ccGTTAAACTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACgcagcag < 1:2100040/68‑1 (MQ=255)
ccGTTAAACTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACgcagcag < 1:1576463/68‑1 (MQ=255)
aaaCTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCAcgc > 1:3373956/1‑68 (MQ=255)
aaaCTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCAcg > 1:2173572/1‑67 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:139572/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:2103654/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:1677583/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:2318535/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:3010153/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:3228847/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGa < 1:1285871/69‑1 (MQ=255)
ctctGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGGCACGCAGCAGCACGCGGGa < 1:471545/69‑1 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAAcc > 1:312660/1‑54 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACt > 1:1839509/1‑67 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACt > 1:2393231/1‑67 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACt > 1:1653997/1‑67 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACt > 1:3331587/1‑67 (MQ=255)
gTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCATGATTCACt > 1:1573893/1‑67 (MQ=255)
ctcACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTc > 1:1800483/1‑67 (MQ=255)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATGCTGATTCACTTTcagcag < 1:3233701/67‑1 (MQ=255)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagtag < 1:2544803/67‑1 (MQ=37)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:2526230/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1922523/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:206128/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1110998/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:2762564/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:624887/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1378122/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1274927/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1416420/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1373969/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1294240/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1352721/67‑1 (MQ=38)
caccCAGCTCAATTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTcagcag < 1:1637512/67‑1 (MQ=38)
tCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCg < 1:2736906/69‑1 (MQ=255)
tCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCg < 1:3238717/69‑1 (MQ=255)
aaTTTTCGCCACATCGCGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGa > 1:2782144/1‑68 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTg > 1:2254960/1‑42 (MQ=21)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTg > 1:2588721/1‑64 (MQ=255)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:443847/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:446922/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:3250340/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:2943572/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:2873955/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:33225/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:2710901/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:1135944/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:2589232/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:553757/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:1641630/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:1719141/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:2012804/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa > 1:1889840/1‑69 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGa > 1:2712103/1‑68 (MQ=25)
aaTTTTCGCCACATCACGCAGTAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGa > 1:618401/1‑68 (MQ=25)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa < 1:1099736/67‑1 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGaa < 1:724151/67‑1 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:751086/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:453572/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:57438/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:3293436/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:1353835/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:2656429/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:2262731/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAAct > 1:1691461/1‑69 (MQ=255)
tCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTAAGCAGGATTTTGCCGaa < 1:151253/67‑1 (MQ=255)
cgcgACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTc > 1:1195304/1‑69 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:2952417/69‑1 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:2785909/69‑1 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:466893/69‑1 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:1525744/69‑1 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:1680373/69‑1 (MQ=255)
cGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTag < 1:1881060/69‑1 (MQ=255)
|
CCGTTAAACTCTGCGATGATGTCGTAGTTCTCACCACCCAGCTCAATCTTCGCGACGTCACGCAGCAGCACGCGGGAACCATCCTGATTCACTTTCAGCAGGATTTTGCCGAACTCTTCAGTAG > minE/312025‑312148
|
| 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
