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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
311,691 |
T→C |
22.5% |
T394T (ACA→ACG) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 311,691 | 0 | T | C | 22.5%
| 258.9
/ 61.6
| 111 | T394T (ACA→ACG) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base T (36/50); new base C (15/10); total (51/60) |
| Fisher's exact test for biased strand distribution p-value = 1.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
Only 100 of 113 total aligned reads displayed.
CTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTAC > minE/311622‑311759
|
cTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACAtt < 1:1341490/70‑1 (MQ=255)
aaCGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGtt < 1:2023695/70‑1 (MQ=255)
aaCGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTa < 1:692119/71‑1 (MQ=255)
cGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGc < 1:848997/71‑1 (MQ=255)
cGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGc > 1:1053744/1‑71 (MQ=255)
gTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCg > 1:992196/1‑71 (MQ=255)
gTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCg < 1:2724515/71‑1 (MQ=255)
ttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtgt > 1:2238548/1‑71 (MQ=255)
ttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtgt > 1:282127/1‑71 (MQ=255)
tCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGtt > 1:3860039/1‑71 (MQ=255)
tACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTa > 1:3897047/1‑71 (MQ=255)
tACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTa > 1:1699142/1‑71 (MQ=255)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:3350701/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:482721/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:93297/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttg < 1:193640/69‑2 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttg < 1:1540903/69‑2 (MQ=9)
accaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGAt < 1:1366210/71‑1 (MQ=9)
accaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGAt > 1:2544236/1‑71 (MQ=9)
aCCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt > 1:3452488/1‑71 (MQ=255)
ccACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt < 1:1304492/70‑1 (MQ=255)
ccACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATc < 1:1727597/71‑1 (MQ=255)
cacaACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTa < 1:1515133/68‑1 (MQ=255)
cacaACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCg < 1:564412/71‑1 (MQ=255)
cacaACGATCGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCg < 1:1458078/71‑1 (MQ=255)
caACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCgag < 1:2228932/71‑1 (MQ=255)
aaCGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCgaga < 1:2189356/71‑1 (MQ=255)
tGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGcc < 1:2971964/70‑1 (MQ=255)
cGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAg < 1:3797414/71‑1 (MQ=255)
atCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaaaag > 1:3276913/2‑69 (MQ=9)
atCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaaaag > 1:2778838/2‑69 (MQ=9)
tCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGtt < 1:1540298/53‑1 (MQ=16)
tCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCg < 1:1899985/58‑1 (MQ=255)
cATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAg > 1:227123/1‑62 (MQ=255)
aTCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaaa > 1:563275/1‑66 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:1824706/71‑1 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:2575103/71‑1 (MQ=255)
ccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGtt > 1:3401248/1‑46 (MQ=255)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAagcggc < 1:1648596/63‑1 (MQ=12)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGat < 1:2299073/69‑2 (MQ=12)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGat > 1:2319320/3‑70 (MQ=12)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGc > 1:1262751/1‑39 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGc > 1:426267/1‑39 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt < 1:3787862/47‑1 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGaa > 1:2471585/1‑53 (MQ=255)
gcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGatg > 1:576654/2‑69 (MQ=12)
gcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGatg > 1:3815727/2‑69 (MQ=12)
aCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGtt > 1:2683269/1‑43 (MQ=255)
aCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGtt > 1:1569027/1‑43 (MQ=255)
aCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACg > 1:3497243/1‑71 (MQ=255)
aGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACgg > 1:3534739/1‑70 (MQ=255)
ggCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGc < 1:3191325/51‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:1796073/71‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:2124814/71‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:2363271/71‑1 (MQ=255)
cccGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCa < 1:690757/69‑1 (MQ=12)
ccGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCgaga < 1:899035/46‑1 (MQ=255)
ccGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:1565651/69‑1 (MQ=255)
cGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCaaac < 1:3652167/71‑2 (MQ=16)
gATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaa > 1:892493/1‑50 (MQ=9)
gATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaa > 1:1247340/1‑50 (MQ=9)
gATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaa > 1:2075371/1‑50 (MQ=9)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGt > 1:1668109/1‑71 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGt < 1:3732859/71‑1 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGt > 1:820374/1‑71 (MQ=255)
aTGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGAt > 1:3094098/1‑38 (MQ=17)
tGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTc > 1:1306873/1‑71 (MQ=255)
tGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTc > 1:2077061/1‑71 (MQ=255)
tGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAagcgg > 1:3950389/1‑54 (MQ=9)
ggCTAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAgg > 1:192406/1‑50 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:2907973/1‑58 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACg > 1:762918/1‑60 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:3526958/71‑1 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:2262432/71‑1 (MQ=255)
aGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa < 1:772822/42‑1 (MQ=255)
gCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAg > 1:2540071/1‑70 (MQ=255)
cACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACg > 1:3730817/1‑55 (MQ=255)
aCCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCaa < 1:3568196/71‑1 (MQ=255)
aCCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTCCCTAACaa < 1:3435123/71‑1 (MQ=12)
ccATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:1463810/46‑1 (MQ=255)
aTCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGa > 1:3509140/1‑64 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggc < 1:170205/40‑1 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGc < 1:865345/52‑1 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGc < 1:2946875/52‑1 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATac < 1:1866087/70‑1 (MQ=255)
ccGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTcc < 1:1104027/58‑1 (MQ=255)
ccGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATacca < 1:742993/70‑1 (MQ=255)
cGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAg < 1:2476207/53‑1 (MQ=255)
gAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcg < 1:2982814/37‑1 (MQ=255)
gAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGGCGGCAAAGGTCCCGAGCAATACCACCg > 1:3583996/1‑71 (MQ=255)
gAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCg < 1:2780201/71‑1 (MQ=255)
gAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCg < 1:3451732/71‑1 (MQ=255)
aaCATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCgg < 1:2634466/71‑1 (MQ=255)
aCATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCgg < 1:899232/70‑1 (MQ=255)
aCATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCgg > 1:1436073/1‑70 (MQ=255)
cATTGTTTGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTa < 1:716698/71‑1 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTa > 1:41513/1‑71 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTa > 1:313318/1‑71 (MQ=255)
aTTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTAc > 1:3030104/1‑71 (MQ=255)
tGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGa > 1:774512/1‑53 (MQ=255)
|
CTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTAC > minE/311622‑311759
|
| 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
