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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
311,562 |
C→T |
20.7% |
Q437Q (CAG→CAA) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 311,562 | 0 | C | T | 20.7%
| 179.2
/ 38.0
| 87 | Q437Q (CAG→CAA) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base C (36/33); new base T (7/11); total (43/44) |
| Fisher's exact test for biased strand distribution p-value = 4.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCAAAGAAGGCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGTT > minE/311493‑311630
|
gCCAAAGAAGGCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCt < 1:2642158/71‑1 (MQ=255)
cgaagaatGCCATCGGAATAAATACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGc < 1:593814/69‑1 (MQ=255)
aaaGAAGGCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGcc > 1:1816424/1‑71 (MQ=255)
aagGCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTg < 1:3090746/65‑1 (MQ=255)
tgCCATCGGAATAAATACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCg < 1:4761962/70‑1 (MQ=255)
tgCCATCGGAATAAATACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCg < 1:457399/70‑1 (MQ=255)
tgCCATCGGAATAAATACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCg < 1:2156899/70‑1 (MQ=255)
ggCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCg < 1:5518337/71‑1 (MQ=255)
ggCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCg < 1:5272128/71‑1 (MQ=255)
cATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCTTCGACt > 1:1866184/1‑71 (MQ=255)
aTCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACt > 1:1423079/1‑70 (MQ=255)
tCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTa > 1:3063381/1‑71 (MQ=255)
cGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATc > 1:5411668/1‑55 (MQ=255)
cGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATc > 1:4732004/1‑55 (MQ=255)
ggTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACg > 1:4652197/1‑71 (MQ=255)
ggTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCAACTTACg > 1:5107319/1‑71 (MQ=255)
tACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGcccc < 1:3768275/58‑1 (MQ=255)
tACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACgg < 1:3657130/70‑1 (MQ=255)
aCGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTAc < 1:775211/67‑1 (MQ=255)
cGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACggg > 1:370842/1‑69 (MQ=255)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGATTTTGcga > 1:3464653/1‑51 (MQ=19)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGa > 1:4848865/1‑59 (MQ=255)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGa > 1:3019711/1‑59 (MQ=255)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGa > 1:3216126/1‑59 (MQ=255)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGa > 1:5636199/1‑59 (MQ=255)
aaTACCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGa > 1:1861955/1‑59 (MQ=255)
aTACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACt < 1:3574320/60‑1 (MQ=255)
aTACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACt < 1:4281949/60‑1 (MQ=255)
tACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCt < 1:2928484/47‑1 (MQ=255)
tACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCt < 1:4381134/47‑1 (MQ=255)
aCCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGAttt < 1:3507797/59‑1 (MQ=255)
aCCGCTGACAGCACCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGAttt < 1:1629952/59‑1 (MQ=255)
aCCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGcttc > 1:1685943/1‑71 (MQ=255)
aCCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGcttc > 1:433074/1‑71 (MQ=255)
ccgccgACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGc > 1:2158641/1‑47 (MQ=255)
ccgccgACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGcttct > 1:1320568/1‑71 (MQ=255)
gACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCt < 1:4342965/40‑1 (MQ=255)
cAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGcttc > 1:3349190/1‑63 (MQ=255)
aGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTggcgg > 1:246316/1‑71 (MQ=255)
gcaCCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGATTTTTCCGTCGCTTCTTTTggc < 1:4178348/66‑1 (MQ=255)
aCCATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGATTTTTCCGTCGCTTCTTTTggcgggag > 1:2750095/1‑68 (MQ=255)
ccATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGAc > 1:5577918/1‑44 (MQ=255)
ccATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGATTTTTCCGTCGCTTCttt < 1:714095/61‑1 (MQ=255)
cATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATc < 1:3814667/40‑1 (MQ=16)
cATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGatt < 1:2529745/44‑3 (MQ=16)
cATCGCGATACCCACCAGTGCGCCCTGAATTTGCGACATCGatt < 1:4122318/44‑3 (MQ=16)
aTCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCaa < 1:3859758/68‑1 (MQ=255)
aTCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAAcc < 1:1911963/71‑1 (MQ=255)
tCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACt < 1:2434777/42‑1 (MQ=255)
gcgATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTa > 1:1941244/1‑42 (MQ=255)
gcgATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACcttc > 1:914193/1‑71 (MQ=255)
cgATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACg < 1:2847855/43‑1 (MQ=255)
aCCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACg < 1:799649/39‑1 (MQ=255)
aCCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACg < 1:1161061/39‑1 (MQ=255)
ccGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCtttt > 1:5651878/1‑51 (MQ=255)
ccGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCtttt > 1:4673531/1‑51 (MQ=255)
gACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCa > 1:954246/1‑71 (MQ=255)
aCCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCttt < 1:4650574/47‑1 (MQ=255)
aCCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCg < 1:2506615/67‑1 (MQ=255)
aCCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCAt < 1:3774947/71‑1 (MQ=255)
aCCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCAt < 1:72699/71‑1 (MQ=255)
ccAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCAt < 1:2099848/70‑1 (MQ=255)
ccAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCAt > 1:2593359/1‑70 (MQ=255)
gagCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTggcggc < 1:3583454/50‑1 (MQ=255)
gagCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACcttct < 1:953740/59‑1 (MQ=255)
gcgcCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACg > 1:2943218/1‑71 (MQ=255)
cgcCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGc < 1:3676133/71‑1 (MQ=255)
ccTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAaca < 1:111315/65‑1 (MQ=255)
ccTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAaca < 1:1490332/65‑1 (MQ=255)
cTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCAt < 1:4912134/60‑1 (MQ=255)
tGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCaa < 1:508183/44‑1 (MQ=255)
tGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATaa > 1:4982303/1‑61 (MQ=255)
tGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAAc > 1:1377659/1‑71 (MQ=255)
tGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAAc > 1:4760678/1‑71 (MQ=255)
tGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAAc > 1:3517069/1‑71 (MQ=255)
gAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACctt > 1:1940471/1‑48 (MQ=255)
gAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAAc > 1:1619275/1‑70 (MQ=255)
gAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACg > 1:3677104/1‑71 (MQ=255)
gAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACg > 1:4923046/1‑71 (MQ=255)
gAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACg > 1:340200/1‑71 (MQ=255)
gAATCTGCACCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACg > 1:1657118/1‑71 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACcttc > 1:324872/1‑48 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACcttc > 1:4306377/1‑48 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAAc < 1:5082804/69‑1 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGt > 1:1580229/1‑71 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGt > 1:722958/1‑71 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGt > 1:5678957/1‑71 (MQ=255)
aaTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGt < 1:2954064/71‑1 (MQ=255)
aTCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGtt < 1:5282395/71‑1 (MQ=255)
|
GCCAAAGAAGGCCATCGGTACGAATACCGCCGACAGTACCATCGCGATACCGACCAGAGCGCCCTGAATCTGCCCCATCGACTTACGGGTAGCTTCTTTTGGCGGCAAACCTTCTTCCGCCATAACACGCTCAACGTT > minE/311493‑311630
|
| 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
