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 |
|
A3 F17 I0 R1
|
56 |
60.7 |
4808188 |
97.1% |
4668750 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,286,501 |
C→A |
30.3% |
A261S (GCG→TCG) |
yejK ← |
nucleotide associated protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,286,501 | 0 | C | A | 30.3%
| 119.0
/ 33.1
| 56 | A261S (GCG→TCG) | yejK | nucleotide associated protein |
| Reads supporting (aligned to +/- strand): ref base C (15/24); new base A (7/10); total (22/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.80e-01 |
AACTGACGCAGTGTGCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCGATCTCTTCG > W3110S.gb/2286437‑2286571
|
aaCTGACGCAGTGTGCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTc > 1:3812180/1‑71 (MQ=255)
aaCTGACGCAGTGTGCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACt > 1:3330055/1‑70 (MQ=255)
aGTGTGCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCt < 1:1356989/71‑1 (MQ=255)
tgtgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTg < 1:3590264/64‑1 (MQ=255)
tgtgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTg < 1:3433589/64‑1 (MQ=255)
tgtgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCt < 1:3278891/69‑1 (MQ=255)
gtgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCaaa > 1:3656612/1‑56 (MQ=255)
gtgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCaaa > 1:3030780/1‑56 (MQ=255)
tgCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACt > 1:4361834/1‑71 (MQ=255)
gCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACtt > 1:2970315/1‑71 (MQ=255)
cTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTc > 1:965214/1‑71 (MQ=255)
cTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTg < 1:4424543/60‑1 (MQ=255)
cTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTc < 1:3258304/71‑1 (MQ=255)
cTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTc < 1:297818/71‑1 (MQ=255)
aCGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGaa > 1:2143440/1‑60 (MQ=255)
cGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:1489437/71‑1 (MQ=255)
cGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:2995670/71‑1 (MQ=255)
cGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:2335631/71‑1 (MQ=255)
cGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:748243/71‑1 (MQ=255)
cGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:2779678/71‑1 (MQ=255)
ggTCTGCCGGGAGGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt > 1:4624324/1‑70 (MQ=255)
ccGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCt > 1:2589619/1‑71 (MQ=255)
ccGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCt > 1:849511/1‑71 (MQ=255)
aaGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCa > 1:3960335/1‑70 (MQ=255)
aGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGc < 1:3485996/71‑1 (MQ=255)
gCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGct < 1:14126/71‑1 (MQ=255)
ctctctTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:880056/56‑1 (MQ=255)
tctctTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGctct > 1:555330/1‑71 (MQ=255)
ctctTCCAGTTCGTAGCCGTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCtt > 1:3300818/1‑71 (MQ=255)
tctTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:1191782/53‑1 (MQ=255)
tctTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCt < 1:359489/53‑1 (MQ=255)
tctTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCg < 1:4290031/37‑1 (MQ=255)
tctTCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCg < 1:1173658/37‑1 (MQ=255)
ttCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTa > 1:3084791/1‑53 (MQ=255)
ttCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCtt < 1:394378/68‑1 (MQ=255)
ttCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCtt < 1:2916065/68‑1 (MQ=255)
ttCCAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTg > 1:1736825/1‑37 (MQ=255)
ccAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAg > 1:2284608/1‑38 (MQ=255)
ccAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTc < 1:1100217/68‑1 (MQ=255)
ccAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTc < 1:4708200/68‑1 (MQ=255)
ccAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTc < 1:1065850/68‑1 (MQ=255)
ccAGTTCGTAGCCTTTTTCAGCCGAAAACTCCGTGAACCTCACTTCGCTTACGCCTGCCAGCTCTTTc < 1:1915761/68‑1 (MQ=255)
acAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAg > 1:1901619/2‑38 (MQ=255)
cAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTTAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTc < 1:2295713/67‑1 (MQ=255)
ttCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTAc < 1:2699728/48‑1 (MQ=255)
cGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGTCTGCCAGCTCTTTCGACAGCGa < 1:4525430/70‑1 (MQ=255)
tAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGAttt > 1:1046678/1‑71 (MQ=255)
tAGCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGAttt < 1:1766537/71‑1 (MQ=255)
gCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGAttt > 1:3939804/1‑69 (MQ=255)
gCCTTTTTCAGCCGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGAttt > 1:4721423/1‑69 (MQ=255)
ccTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCg > 1:494773/1‑36 (MQ=255)
tttttCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTc < 1:3037260/67‑1 (MQ=255)
ttCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCg < 1:2159487/70‑1 (MQ=255)
ttCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCg < 1:4563093/70‑1 (MQ=255)
ttCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCg < 1:129831/70‑1 (MQ=255)
ccGAAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCGATctct < 1:3803286/71‑1 (MQ=255)
cAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTc > 1:3968135/1‑44 (MQ=255)
cAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCGATCTCTTCg > 1:1458620/1‑71 (MQ=255)
|
AACTGACGCAGTGTGCTACGGTCTGCCGGGAAGCTCTCTTCCAGTTCGTAGCCTTTTTCAGCCGCAAACTCCGTGAAGCTCACTTCGCTTACGCCTGCCAGCTCTTTCGACAGCGATTTCAGTTCGATCTCTTCG > W3110S.gb/2286437‑2286571
|
| 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
