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 |
311,697 |
C→T |
14.4% |
T392T (ACG→ACA) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 311,697 | 0 | C | T | 14.4%
| 318.0
/ 30.6
| 118 | T392T (ACG→ACA) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base C (52/49); new base T (8/9); total (60/58) |
| Fisher's exact test for biased strand distribution p-value = 7.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 122 total aligned reads displayed.
CGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTACGGCAA > minE/311627‑311764
|
cGTTTTCTACCACAACGATGGCGTCATCCCCCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGc > 1:2161141/1‑71 (MQ=255)
ttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtgt > 1:5433983/1‑71 (MQ=255)
ttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtgt > 1:1397721/1‑71 (MQ=255)
ttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtg < 1:4225786/70‑1 (MQ=255)
tCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCgtgt < 1:3700339/70‑1 (MQ=255)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:4149736/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttg < 1:4994313/69‑2 (MQ=9)
ccaccaCTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGAtg < 1:477367/71‑2 (MQ=2)
caccacTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGAtg < 1:5562986/70‑2 (MQ=2)
acaACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCga < 1:2423164/71‑1 (MQ=255)
tGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa < 1:1071670/71‑1 (MQ=255)
ggCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa > 1:958283/1‑70 (MQ=255)
ggCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa > 1:2725324/1‑70 (MQ=255)
gCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa > 1:3622721/1‑69 (MQ=255)
gTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAgg < 1:2435204/71‑1 (MQ=255)
gTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAgg > 1:5049028/1‑71 (MQ=255)
gTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAgg > 1:5396240/1‑71 (MQ=255)
tCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggc < 1:4854868/71‑1 (MQ=255)
tCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggc < 1:1420939/71‑1 (MQ=255)
aTCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcgg > 1:539611/1‑71 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaa < 1:5550556/64‑1 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:5510265/71‑1 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcgg > 1:4525407/1‑70 (MQ=255)
tCCACCAACAGGCAGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaa < 1:4851666/64‑1 (MQ=255)
caccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTGTCGAGAAGCCAAAg > 1:4383075/1‑64 (MQ=255)
caccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt > 1:2497605/1‑51 (MQ=255)
caccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCga > 1:2975313/1‑54 (MQ=255)
caccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAg > 1:2174257/1‑64 (MQ=255)
accaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAg < 1:3755918/71‑1 (MQ=255)
accaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAg < 1:3421285/71‑1 (MQ=255)
accaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAg < 1:2964428/71‑1 (MQ=255)
gagcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAagc < 1:600496/60‑1 (MQ=9)
caACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt < 1:5616912/48‑1 (MQ=255)
caACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt < 1:540908/48‑1 (MQ=255)
caACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTAt < 1:4071180/48‑1 (MQ=255)
caACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCga < 1:510460/51‑1 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGc > 1:2718452/1‑55 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaaa > 1:793641/1‑59 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaaa > 1:1893672/1‑59 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCa > 1:5318445/1‑57 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGAc > 1:469348/1‑71 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGAc > 1:3244469/1‑71 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGAc > 1:4240022/1‑71 (MQ=255)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGAc > 1:5483622/1‑71 (MQ=255)
gcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAgtgt < 1:161080/39‑1 (MQ=18)
aCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAg < 1:5028315/67‑1 (MQ=255)
aGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGc < 1:841289/71‑1 (MQ=255)
ggCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:572928/71‑1 (MQ=255)
ggCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:4191323/71‑1 (MQ=255)
cccGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCaa < 1:1437865/70‑1 (MQ=16)
ccGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:3557547/59‑1 (MQ=255)
cGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAg < 1:1094316/71‑1 (MQ=255)
gATGGCTAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGcc < 1:3399714/48‑1 (MQ=255)
gATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGcc < 1:1626237/48‑1 (MQ=255)
gATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGcc < 1:3037034/48‑1 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:3707842/56‑1 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:4838550/56‑1 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:219989/56‑1 (MQ=255)
aTGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGt < 1:1344227/71‑1 (MQ=12)
tGGCGAGCACCATCCCTAACATTGTTATCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:4981848/65‑1 (MQ=255)
ggCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCgaga > 1:4550352/1‑41 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:4340837/71‑1 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:1865527/71‑1 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:1676517/71‑1 (MQ=255)
aaGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTccct > 1:85032/2‑69 (MQ=12)
aGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaa < 1:3260133/43‑1 (MQ=255)
aGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCaa < 1:646078/43‑1 (MQ=255)
aGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAg > 1:2721745/1‑71 (MQ=255)
aGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGat > 1:4923939/1‑55 (MQ=12)
aGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTccctaa > 1:1227868/1‑68 (MQ=12)
gCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAg > 1:3962273/1‑70 (MQ=255)
cACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTcc > 1:4627673/1‑65 (MQ=255)
cACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGc > 1:1881803/1‑70 (MQ=255)
aCCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:68116/1‑52 (MQ=255)
aCCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:785974/1‑52 (MQ=255)
aCCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTCCCTAACaa < 1:1302844/71‑1 (MQ=12)
ccATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCa > 1:2161714/1‑69 (MQ=255)
ccATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCa > 1:2964362/1‑69 (MQ=255)
ccATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTCCCTAACaac < 1:1962639/71‑2 (MQ=12)
cATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTc > 1:128890/1‑61 (MQ=12)
cATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTCCCTAACaaca > 1:4166017/1‑69 (MQ=12)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcgg > 1:3876650/1‑42 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCaa > 1:2579569/1‑45 (MQ=255)
tCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:4952290/54‑1 (MQ=255)
tCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGATGGCAAACGTCCCTAACaaca > 1:91188/1‑67 (MQ=12)
ccGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGc < 1:4266106/63‑1 (MQ=255)
gAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCg > 1:4877978/1‑71 (MQ=255)
aaCATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCgg < 1:1693640/71‑1 (MQ=255)
aCATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCgg > 1:4653480/1‑70 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:2130522/1‑41 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:3814848/1‑41 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:1352518/46‑1 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCg > 1:1447142/1‑68 (MQ=255)
cATTGTTAGCGTGTTTATCGAGAAGCCAAAGGAGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCg > 1:1376820/1‑68 (MQ=255)
gTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc > 1:1032302/1‑50 (MQ=255)
gTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc > 1:727980/1‑50 (MQ=255)
gTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc > 1:1202656/1‑50 (MQ=255)
gTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTACgg > 1:1724965/1‑70 (MQ=255)
ttAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa < 1:4969280/36‑1 (MQ=255)
cGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:800495/38‑1 (MQ=255)
|
CGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCCGAGCAATACCACCGGTACGGCAA > minE/311627‑311764
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
