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 |
311,673 |
G→A |
23.1% |
L400L (CTC→CTT) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 311,673 | 0 | G | A | 23.1%
| 231.9
/ 55.2
| 100 | L400L (CTC→CTT) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base G (35/41); new base A (15/8); total (51/49) |
| Fisher's exact test for biased strand distribution p-value = 1.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
Only 100 of 101 total aligned reads displayed.
CTTCTTCCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCC > minE/311603‑311741
|
cttcttCCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCg < 1:123282/71‑1 (MQ=255)
ttcttcCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGa > 1:3515405/1‑71 (MQ=255)
tcttcCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAg > 1:488728/1‑71 (MQ=255)
tcttcCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAg > 1:3675685/1‑71 (MQ=255)
ccGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCa < 1:1651762/69‑1 (MQ=255)
cGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCAcc < 1:274408/70‑1 (MQ=255)
cGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCAcc < 1:903897/70‑1 (MQ=255)
cGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCAcc < 1:3713951/70‑1 (MQ=255)
cATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATcc > 1:333152/1‑71 (MQ=255)
acacGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGaa > 1:2133125/1‑71 (MQ=255)
acacGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGa > 1:3355033/1‑70 (MQ=255)
cacGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGaa > 1:3239778/1‑70 (MQ=255)
acGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATc < 1:3175583/64‑1 (MQ=255)
acGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATc < 1:3904518/64‑1 (MQ=255)
acGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACa < 1:1348260/71‑1 (MQ=255)
cGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACAt < 1:1507946/71‑1 (MQ=255)
cGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACAt > 1:3003479/1‑71 (MQ=255)
cTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACAtt < 1:1341490/70‑1 (MQ=255)
aaCGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGa > 1:1735466/1‑50 (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 < 1:2724515/71‑1 (MQ=255)
ttttCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAg < 1:1369796/68‑1 (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 > 1:93297/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:3350701/2‑69 (MQ=9)
caccaccACTATCGCATCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGttga > 1:482721/2‑69 (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)
cacaACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACa < 1:3109005/53‑1 (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)
aaCGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATccc > 1:1344730/1‑45 (MQ=255)
aaCGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCgaga < 1:2189356/71‑1 (MQ=255)
tGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGcc < 1:2971964/70‑1 (MQ=255)
cGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAg < 1:3797414/71‑1 (MQ=255)
atCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaaaag > 1:2778838/2‑69 (MQ=9)
atCATCGACGAGCAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaaaag > 1:3276913/2‑69 (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 < 1:2575103/71‑1 (MQ=255)
tCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAggcggc < 1:1824706/71‑1 (MQ=255)
ccaACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGtt > 1:3401248/1‑46 (MQ=255)
caACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa < 1:2470315/71‑1 (MQ=255)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAagcggc < 1:1648596/63‑1 (MQ=12)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGat > 1:2319320/3‑70 (MQ=12)
agcAGCCCGATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAAGCGGCGAGGat < 1:2299073/69‑2 (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)
aaCAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGAc < 1:2742190/71‑1 (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 < 1:3864917/71‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:2363271/71‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCaa < 1:2124814/71‑1 (MQ=255)
gCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCa < 1:3006533/70‑1 (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 > 1:1247340/1‑50 (MQ=9)
gATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaa > 1:892493/1‑50 (MQ=9)
gATGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCaa > 1:2075371/1‑50 (MQ=9)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGt < 1:3732859/71‑1 (MQ=255)
aTGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGt > 1:1668109/1‑71 (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 > 1:2130779/1‑54 (MQ=9)
tGGCAAGCACCATCCCGAACATCGTTAGTGTGTTGATGGAGTAACCAAAagcgg > 1:3950389/1‑54 (MQ=9)
ggCTAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAgg > 1:192406/1‑50 (MQ=255)
ggCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTcc > 1:3435692/1‑71 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGa > 1:2907973/1‑58 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACg > 1:762918/1‑60 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:2262432/71‑1 (MQ=255)
gCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTccc < 1:3526958/71‑1 (MQ=255)
|
CTTCTTCCGCCATAACACGCTCAACGTTTTCTACCACAACGATGGCGTCATCCACCAACAGGCCGATGGCGAGCACCATCCCGAACATTGTTAGCGTGTTTATCGAGAAGCCAAAGGCGGCAAGGACGGCAAAGGTCCC > minE/311603‑311741
|
| 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
