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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,560,998 |
A→G |
29.8% |
F44S (TTT→TCT) |
yihX ← |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,560,998 | 0 | A | G | 29.8%
| 60.6
/ 36.6
| 47 | F44S (TTT→TCT) | yihX | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (19/14); new base G (7/7); total (26/21) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01 |
TAGAGCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCA > W3110S.gb/3560928‑3561062
|
tAGAGCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaa < 1:3732193/71‑1 (MQ=255)
agagCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:3401180/1‑71 (MQ=255)
gagCCATCTCATGACACAGCGCCTCTGCGAACGCTTCTTCGCTAATTTCCCCACGCTCATGCTGATGAGAc < 1:1877925/71‑1 (MQ=255)
gCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGc > 1:1585068/1‑71 (MQ=255)
tctcATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTcc > 1:2451014/1‑71 (MQ=255)
tcATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGcc < 1:884666/66‑1 (MQ=255)
aTGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:753050/1‑60 (MQ=255)
aTGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTc > 1:4629261/1‑66 (MQ=255)
cacaGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATg < 1:2154390/71‑1 (MQ=255)
acaGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATg < 1:1847470/70‑1 (MQ=255)
caGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGc < 1:2479069/57‑1 (MQ=255)
aGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGaa > 1:1375062/1‑70 (MQ=255)
cgcCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGaaa > 1:545137/1‑69 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGaaa > 1:910965/1‑45 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaaaa > 1:3332346/1‑64 (MQ=255)
tGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:1694401/62‑1 (MQ=255)
gCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAAc > 1:3705694/1‑45 (MQ=255)
gCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAAc > 1:1514316/1‑45 (MQ=255)
cGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTcttctt > 1:3849061/1‑70 (MQ=255)
cGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGc > 1:1265027/1‑70 (MQ=255)
cGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGc > 1:1090320/1‑70 (MQ=255)
gCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAGAc < 1:4440242/39‑1 (MQ=255)
gCTTCGTCGCTAATTTCCCCACCCTCATGCTGATGAAACGCCTCCCCCATATGaa < 1:257919/55‑1 (MQ=255)
cTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGAt < 1:1406274/71‑1 (MQ=255)
tcgtcgCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGc > 1:3400036/1‑71 (MQ=255)
cgtcgCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGc > 1:1628048/1‑70 (MQ=255)
gtcgCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGc > 1:1768642/1‑69 (MQ=255)
cgCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGc > 1:3851937/1‑71 (MQ=255)
gCTAATTTCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGc < 1:3048111/70‑1 (MQ=255)
cTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:4147032/71‑1 (MQ=255)
cTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:884990/71‑1 (MQ=255)
aTTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa < 1:916061/70‑1 (MQ=255)
aTTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGa < 1:2016665/69‑1 (MQ=255)
tttCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGc < 1:3639909/56‑1 (MQ=255)
tttCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:38409/67‑1 (MQ=255)
tttCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCgg < 1:2424160/67‑1 (MQ=255)
ttCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACtcttct > 1:2849044/1‑50 (MQ=255)
tCCCCACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAg > 1:4059446/1‑53 (MQ=255)
cccACGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa < 1:574140/65‑1 (MQ=255)
aCGCTCATGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTa < 1:4514702/71‑1 (MQ=255)
aCGCTCATGCTGATGAAACGCCTCCCCCATATGAAAAc > 1:3967362/1‑38 (MQ=255)
aCGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa > 1:1784545/1‑62 (MQ=255)
gCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTaa < 1:3573876/70‑1 (MQ=255)
cTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATg > 1:1352104/1‑50 (MQ=255)
tCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAAt > 1:1184854/1‑70 (MQ=255)
tCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATc > 1:1559610/1‑71 (MQ=255)
cATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGaa > 1:114740/1‑57 (MQ=255)
tGCTGATGAGACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCt < 1:3554236/71‑1 (MQ=255)
gaAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATa > 1:1687182/1‑50 (MQ=255)
gaAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATa > 1:2115446/1‑50 (MQ=255)
gaAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCa > 1:3034138/1‑67 (MQ=255)
aaaCGCCTCCCCCATATGAAAACTCTTCTTAAGCGa > 1:457135/1‑36 (MQ=255)
aaaCGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATa > 1:3105830/1‑49 (MQ=255)
|
TAGAGCCATCTCATGACACAGCGCCTCTGCGAACGCTTCGTCGCTAATTTCCCCACGCTCATGCTGATGAAACGCCTCCCCCATATGAAAACTCTTCTTAAGCGATGCCAGCGGAATACGCGTTAAATCGCTCCA > W3110S.gb/3560928‑3561062
|
| 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
