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 |
|
A13 F69 I0 R1
|
1426 |
148.0 |
5875178 |
97.4% |
5722423 |
123.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,629,437:1 |
+C |
12.9% |
intergenic (+19/+16) |
ydfZ → / ← ydfI |
selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,629,437 | 1 | . | C | 12.9%
| 108.5
/ 14.4
| 31 | intergenic (+19/+16) | ydfZ/ydfI | selenoprotein, function unknown/putative NAD‑dependent D‑mannonate oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base . (13/14); new base C (2/2); total (15/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.16e-01 |
TGATACTGAAGGTCTGACCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGCAGTAAACAAACTATTGTCTGGCAAATCATCACCAAAGATCGCCTTAATCGCCAG > NC_000913/1629307‑1629584
|
tGATACTGAAGGTCTGACCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTa < 4:218219/149‑1 (MQ=255)
gTCTGACCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑AGCGGCATTGCTTTTTTACTTCACGGAat < 3:1256683/149‑1 (MQ=255)
aCCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCC‑ATCGGCGGCAt < 1:615002/123‑1 (MQ=255)
aCCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCC‑ATCGGCGGCAt > 2:615002/1‑123 (MQ=255)
ggAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCa > 4:692402/1‑149 (MQ=255)
gttgttGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATaaa < 3:692402/149‑1 (MQ=255)
ttGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCta > 4:873484/1‑133 (MQ=255)
ttGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCta < 3:873484/133‑1 (MQ=255)
ttGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGt > 3:1114448/1‑149 (MQ=255)
gAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACgg > 1:1244000/1‑108 (MQ=255)
gAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACgg < 2:1244000/108‑1 (MQ=255)
gagaAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGaa > 1:1065874/1‑92 (MQ=255)
gagaAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGaa < 2:1065874/92‑1 (MQ=255)
ggCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGc < 4:1114448/149‑1 (MQ=255)
tGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACaa > 4:349222/1‑120 (MQ=255)
tGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACaa < 3:349222/120‑1 (MQ=255)
gTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGa > 2:532150/1‑105 (MQ=255)
gTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGa < 1:532150/105‑1 (MQ=255)
cATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTc > 3:634111/1‑114 (MQ=255)
cATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTc < 4:634111/114‑1 (MQ=255)
aCTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTcgc > 3:864245/1‑75 (MQ=255)
aCTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTcgc < 4:864245/75‑1 (MQ=255)
gtgtGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTc < 1:603433/102‑1 (MQ=255)
gtgtGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTc > 2:603433/1‑102 (MQ=255)
tgAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCtaa > 3:755030/1‑77 (MQ=255)
tgAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCtaa < 4:755030/77‑1 (MQ=255)
aaTGCCGCC‑ATCGGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGa < 1:1295283/81‑1 (MQ=255)
aaTGCCGCC‑ATCGGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGa > 2:1295283/1‑81 (MQ=255)
cgccgAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGCAGTAAACAAACTATTGTCTGGCAAatca > 1:557259/1‑128 (MQ=255)
cgccgAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGCAGTAAACAAACTATTGTCTGGCAAatca < 2:557259/128‑1 (MQ=255)
aT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGCAGTAAACAAACTATTGTCTGGCAAATCATCACCAAAGATCGCCTTAATCGCCAg > 2:912993/1‑149 (MQ=255)
|
TGATACTGAAGGTCTGACCGCTGAGCAAATCCGCCGCGGAAAAACCGTAGTTGTTGAAGGTTGTGAAGAGAAACTGGCACCACTGGACCTGATTCGTCTCGGCATGAACTAAGCGTGTGAATGCCGCCGAT‑GGCGGCATTGCTTTTTTACTTCACGGAATATTTTGCCACGGTCGCTTTCGCGCCATGCGCTAATAAAGACAAGTACGTTTCCGTCACTCTTGCAGTAAACAAACTATTGTCTGGCAAATCATCACCAAAGATCGCCTTAATCGCCAG > NC_000913/1629307‑1629584
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
