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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,487,895 |
T→C |
21.4% |
K209E (AAA→GAA) |
valS ← |
valyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,487,895 | 0 | T | C | 21.4%
| 63.7
/ 14.5
| 34 | K209E (AAA→GAA) | valS | valyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base T (14/12); new base C (2/5); total (17/17) |
| Fisher's exact test for biased strand distribution p-value = 3.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAG > W3110S.gb/4487830‑4487964
|
aTCGCCCAGCAGGGTTTCTTTACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCg < 1:3995806/68‑1 (MQ=255)
tCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCAcc < 1:2768884/71‑1 (MQ=255)
tCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCAcc > 1:3233939/1‑71 (MQ=255)
tCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCAcc > 1:3798846/1‑71 (MQ=255)
tCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCAcc > 1:3805335/1‑71 (MQ=255)
tCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACAAGATAATCTTTACCGTCTGCGGTTTACGCa > 1:2575791/1‑69 (MQ=255)
gCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGt > 1:297980/1‑71 (MQ=255)
agGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTcagccag < 1:547382/71‑1 (MQ=255)
agGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTcagccag < 1:2647450/71‑1 (MQ=255)
ggTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTCCGCACCGTCAGCCagcg < 1:2273470/71‑1 (MQ=255)
aCGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCagcggatagcgga < 1:2393032/71‑1 (MQ=255)
aCGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTCCGCACCGTCAGCCagcggatagcgga < 1:670717/71‑1 (MQ=255)
gcgACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACAt > 1:3412710/1‑71 (MQ=255)
gcgACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACAt > 1:3892977/1‑71 (MQ=255)
gcgACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACAt > 1:1837181/1‑71 (MQ=255)
accaccAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGa < 1:2554648/71‑1 (MQ=255)
accaccAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGa < 1:2096142/71‑1 (MQ=255)
accaccAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGa < 1:1321940/71‑1 (MQ=255)
aGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCagcg < 1:335979/43‑1 (MQ=255)
gATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTc > 1:3856069/1‑71 (MQ=255)
tAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGa > 1:1439521/1‑71 (MQ=255)
aaTCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGAt > 1:2958/1‑71 (MQ=255)
aaTCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGAt > 1:1638602/1‑71 (MQ=255)
aaTCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGAt > 1:3144657/1‑71 (MQ=255)
aTCTTTACCGTCTGCGGTTTCCGCACCGTCAGCCagcg < 1:2309330/38‑1 (MQ=255)
aTCTTTACCGTCTGCGGTTTCCGCACCGTCAGCCagcg < 1:219171/38‑1 (MQ=255)
aTCTTTACCGTCTGCGGTTTCCGCACCGTCAGCCagcg < 1:1801744/38‑1 (MQ=255)
tACCGTCTGCGGTTTCCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGaa > 1:3730792/1‑56 (MQ=255)
tACCGTCTGCGGTTTCCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCgg > 1:1979343/1‑71 (MQ=255)
tCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCgg < 1:3063094/66‑1 (MQ=255)
tCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTc < 1:2626641/71‑1 (MQ=255)
tCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTc < 1:2505510/71‑1 (MQ=255)
tGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGaa > 1:2561531/1‑49 (MQ=255)
tGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGaa > 1:2812598/1‑49 (MQ=255)
ttCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAg > 1:2693874/1‑71 (MQ=255)
ttCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAg > 1:2688952/1‑71 (MQ=255)
ttCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAg > 1:3649357/1‑71 (MQ=255)
ttCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAg > 1:2536670/1‑71 (MQ=255)
ttCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAg > 1:561183/1‑71 (MQ=255)
|
ATCGCCCAGCAGGGTTTCTGGACGGGTAGTCGCGACCACCAGATAATCTTTACCGTCTGCGGTTTTCGCACCGTCAGCCAGCGGATAGCGGATGTGCCACATCGAACCTTTCGATTCGCGGTTTTCGACTTCCAG > W3110S.gb/4487830‑4487964
|
| 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
