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 |
|
A1 F1 I1 R1
|
315 |
33.5 |
1889570 |
98.7% |
1865005 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,158,945 |
T→C |
V187A (GTC→GCC) |
mdtC → |
multidrug efflux pump RND permease subunit MdtC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,158,945 | 0 | T | C | 100.0%
| 121.7
/ NA
| 34 | V187A (GTC→GCC) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (23/11); total (23/11) |
CTGGCTCCGACGATTTCGCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGTCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCACCGCCGTCAGCAATGC > NC_000913/2158869‑2159017
|
cTGGCTCCGACGATTTCGCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCggg > 1:392559/1‑81 (MQ=255)
tGGCTCCGACGATTTCGCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGc > 1:392528/1‑81 (MQ=255)
gacgaTTTCGCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATcc > 1:392557/1‑81 (MQ=255)
gCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCt < 1:392494/81‑1 (MQ=255)
gCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCt > 2:392541/1‑81 (MQ=255)
gCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCt < 2:392495/81‑1 (MQ=255)
aaaTCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGt > 2:392534/1‑81 (MQ=255)
aaaTCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGt > 1:392554/1‑81 (MQ=255)
aaTCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGtt > 1:392561/1‑81 (MQ=255)
tCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGttt > 1:392535/1‑80 (MQ=255)
ggTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAg > 1:392560/1‑81 (MQ=255)
gtgtTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCTGCAGGCGCTGTTTAATCAgg > 2:392558/1‑81 (MQ=255)
ttGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCg > 2:392569/1‑81 (MQ=255)
gTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCgtg < 1:392496/80‑1 (MQ=255)
tGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTc < 1:392497/81‑1 (MQ=255)
gatgtcgatgtcGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCg > 1:392538/1‑81 (MQ=255)
gatgtcgatgtcGGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCg > 2:392555/1‑81 (MQ=255)
gtcgatgtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTg > 1:392552/1‑81 (MQ=255)
tcgatgtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTgg < 1:392498/81‑1 (MQ=255)
gatgtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGgac > 2:392564/1‑81 (MQ=255)
gatgtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGga < 1:392499/80‑1 (MQ=255)
atgtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGgacg < 2:392500/81‑1 (MQ=255)
gtcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGgacgac > 2:392566/1‑81 (MQ=255)
tcgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGacgacg > 2:392547/1‑81 (MQ=255)
cgGAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGacgacg > 1:392539/1‑80 (MQ=255)
ggAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGt < 1:392501/80‑1 (MQ=255)
gAGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTAc < 1:392502/81‑1 (MQ=255)
aGGCAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACg < 2:392503/81‑1 (MQ=255)
cAGCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCAc > 2:392548/1‑81 (MQ=255)
gCTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCAccg < 2:392504/81‑1 (MQ=255)
cTCACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCAccgc > 2:392551/1‑81 (MQ=255)
cACTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCAccgccg > 2:392553/1‑81 (MQ=255)
aCTGCCCGCCGTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCACCGCCGt > 1:392562/1‑81 (MQ=255)
gTACGCGCCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCACCGCCGTCAGCAATGc > 1:392563/1‑80 (MQ=255)
|
CTGGCTCCGACGATTTCGCAAATCGACGGTGTTGGTGATGTCGATGTCGGAGGCAGCTCACTGCCCGCCGTACGCGTCGGGCTGAATCCGCAGGCGCTGTTTAATCAGGGCGTGTCGCTGGACGACGTACGCACCGCCGTCAGCAATGC > NC_000913/2158869‑2159017
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
