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 |
|
A5 F3 I0 R1
|
43 |
41.2 |
3165159 |
98.4% |
3114516 |
61.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,303,633 |
G→T |
100% |
Q246Y (CAG→TAT) |
oppA → |
oligopeptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,303,633 | 0 | G | T | 100.0%
| 140.9
/ NA
| 46 | Q246Y (CAG→TAT) | oppA | oligopeptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (20/26); total (20/26) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTG > W3110S.gb/1303568‑1303691
|
aacgaacgAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAAATATGTAAc > 1:117145/1‑71 (MQ=255)
acgaacgaATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc < 1:360336/71‑1 (MQ=255)
acgaacgaATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc < 1:2843333/71‑1 (MQ=255)
cgaacgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc > 1:1344713/1‑70 (MQ=255)
gaacgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:1488959/71‑1 (MQ=255)
gaacgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:2410270/71‑1 (MQ=255)
cgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTAttt < 1:2036463/71‑1 (MQ=255)
aTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc < 1:1586330/71‑1 (MQ=255)
tCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:523807/64‑1 (MQ=255)
tCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:370721/64‑1 (MQ=255)
gTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc < 1:2251820/60‑1 (MQ=255)
gTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAt > 1:1324348/1‑71 (MQ=255)
cTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGc > 1:2354855/1‑71 (MQ=255)
gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGc < 1:1918262/57‑1 (MQ=255)
cAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt > 1:2211321/1‑67 (MQ=255)
gCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGaa < 1:2305927/68‑1 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTa < 1:1757031/41‑1 (MQ=38)
gACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc > 1:708708/1‑70 (MQ=255)
aCCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAc > 1:1068867/1‑68 (MQ=255)
tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCg < 1:1623562/67‑1 (MQ=255)
cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCtt > 1:1860492/1‑53 (MQ=255)
cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCt > 1:139244/1‑52 (MQ=255)
cTGGAACAACGCGAAAACCGTTATAAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGt > 1:935862/1‑69 (MQ=255)
tGGAACAACGCGAAAACCGTTATTAACTATGTAACCt < 1:2075642/37‑1 (MQ=37)
ggAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAAc > 1:2702354/1‑71 (MQ=255)
ggAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAAc > 1:3159255/1‑71 (MQ=255)
gAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt > 1:825006/1‑52 (MQ=255)
gAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt > 1:1535037/1‑52 (MQ=255)
acaacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGtt < 1:693249/56‑1 (MQ=255)
aacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:1117558/57‑1 (MQ=255)
gcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTg > 1:550270/1‑40 (MQ=38)
gcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTcaaccgcaaccg > 1:2760825/1‑71 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCtt < 1:2806428/42‑1 (MQ=38)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCaa > 1:916762/1‑61 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt < 1:111533/71‑1 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt < 1:281434/71‑1 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt < 1:2138288/71‑1 (MQ=255)
gAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCg > 1:968003/1‑69 (MQ=255)
aaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:1379792/49‑1 (MQ=39)
aaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:1170661/49‑1 (MQ=39)
aCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCg < 1:3127972/65‑1 (MQ=255)
ccGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg < 1:805149/39‑1 (MQ=37)
cGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTa > 1:999929/1‑65 (MQ=255)
gTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAgtgggg > 1:2155235/1‑68 (MQ=255)
ttattaACTATGTAACCTATTTGCCTATTGCTTCTGa < 1:2208248/37‑1 (MQ=37)
ttaACTATGTAACCTATTTGCCTATTGCTTCTGaa < 1:2877441/35‑1 (MQ=37)
|
AACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTG > W3110S.gb/1303568‑1303691
|
| 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
