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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,294,438 |
T→C |
10.6% |
L395S (TTG→TCG) |
yraM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,294,438 | 0 | T | C | 10.6%
| 175.6
/ 12.7
| 66 | L395S (TTG→TCG) | yraM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (27/32); new base C (4/3); total (31/35) |
| Fisher's exact test for biased strand distribution p-value = 6.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01 |
TAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAATCGCG > W3110S.gb/3294369‑3294503
|
tAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTg > 1:1572546/1‑71 (MQ=255)
tAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTg > 1:333228/1‑71 (MQ=255)
cAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGaa < 1:943094/71‑1 (MQ=255)
aGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAag < 1:77216/71‑1 (MQ=255)
ggTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGaa > 1:2329198/1‑69 (MQ=255)
gTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGtt < 1:1810743/62‑1 (MQ=255)
ttCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGc < 1:1702360/71‑1 (MQ=255)
ttCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGc < 1:1417300/71‑1 (MQ=255)
tCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGc > 1:4340069/1‑62 (MQ=255)
tCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGc > 1:4334840/1‑62 (MQ=255)
caggagGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAaga < 1:2298645/67‑1 (MQ=255)
agcagGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGaa < 1:3118853/64‑1 (MQ=255)
gATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTcc < 1:1616955/71‑1 (MQ=255)
gcgcGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGc < 1:2163795/59‑1 (MQ=255)
gAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGATCg < 1:2032248/71‑1 (MQ=255)
aGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGt < 1:2429191/71‑1 (MQ=255)
gTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTa < 1:166508/71‑1 (MQ=255)
tATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGtt < 1:2470767/42‑1 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCt > 1:2868854/1‑43 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACt < 1:1976112/70‑1 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTg < 1:3341617/71‑1 (MQ=255)
tgtgGTCGGTCTGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAagag > 1:119606/1‑48 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTgg > 1:3293590/1‑70 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTgg < 1:2640447/70‑1 (MQ=255)
tgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGc < 1:2451477/70‑1 (MQ=255)
tgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGc < 1:4522395/70‑1 (MQ=255)
tgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGc < 1:2598185/70‑1 (MQ=255)
tcggtcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGc < 1:3463361/67‑1 (MQ=255)
cggtcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACt > 1:1726086/1‑69 (MQ=255)
ggtcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGa < 1:4176299/70‑1 (MQ=255)
ggtcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGa > 1:27152/1‑70 (MQ=255)
gtcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCt < 1:146362/52‑1 (MQ=255)
tcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAAc > 1:1006567/1‑70 (MQ=255)
tcCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAAc > 1:4304310/1‑70 (MQ=255)
cGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTg > 1:924032/1‑59 (MQ=255)
cGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAg > 1:2906663/1‑71 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGa < 1:1730537/65‑1 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGc < 1:2169685/71‑1 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGcc > 1:1955400/1‑71 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGcc < 1:288238/71‑1 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGcc > 1:2023554/1‑71 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGcc < 1:1332797/71‑1 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAAc > 1:971584/1‑66 (MQ=255)
ttGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGcc > 1:976957/1‑71 (MQ=255)
gCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCg > 1:3555336/1‑70 (MQ=255)
tGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTgg > 1:3244128/1‑54 (MQ=255)
tGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCgg < 1:2460516/69‑1 (MQ=255)
gAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgag > 1:1687017/1‑70 (MQ=255)
gAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgag > 1:1912328/1‑70 (MQ=255)
aaaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACt > 1:1540741/1‑50 (MQ=255)
aaaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgag < 1:1713540/69‑1 (MQ=255)
aaaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGaa > 1:4314521/1‑71 (MQ=255)
aaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCa < 1:1394849/61‑1 (MQ=255)
aaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAat < 1:2269904/71‑1 (MQ=255)
aaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGt < 1:3308640/45‑1 (MQ=255)
aaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGaa > 1:836327/1‑57 (MQ=255)
aaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAata > 1:3387809/1‑71 (MQ=255)
aTAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATc > 1:4608042/1‑71 (MQ=255)
tAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACg < 1:2069577/41‑1 (MQ=255)
aaCGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgaga > 1:522272/1‑64 (MQ=255)
aCGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGaa > 1:4137259/1‑37 (MQ=255)
aCGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGaa < 1:4540947/71‑1 (MQ=255)
gTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGaaaa < 1:1872369/71‑1 (MQ=255)
gTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGaaaa < 1:4421539/71‑1 (MQ=255)
gAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgag < 1:4318029/57‑1 (MQ=255)
gAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAATc < 1:4328613/70‑1 (MQ=255)
agagTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgaga > 1:3257322/1‑56 (MQ=255)
agagTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAATcgcg > 1:2137646/1‑71 (MQ=255)
|
TAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAATCGCG > W3110S.gb/3294369‑3294503
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
