Chromosome: |
Position: | - * Maximum size is 10,000 bp
Quality: | >=
DP: | >=
Line Width: | =
| * Use 0 for single line out.
| Note: The fasta file being exported shows preferentially variant type allele regardless of its genotype "heterozygous or homozygous". Ns in the alignment indicates unmapped site (Depth = 0) as well as site below the threshold of depth and quality user set.

Chromosome: |
Position: | - * Maximum size is 200,000 bp
ID: |
Quality | >=
DP | >=

### Accession lists
Visible lists |  | Hidden lists

### Accession title
ID or NAME Subtitle Width

### Recovery lists (original)

ID |
Position | bp
History |

| : Quality of Variant
| : Depth of All reads
| : Depth of Alternative allele

To learn more about how to use TASUKE, visit this page.

Display Modes Modes shown below can be changed at menu bar.
| SNP only SNP frequency is shown by blue gradient. Regions with no mapped reads are highlighted with yellow.
| DEPTH Average depth value of the block is shown by gray gradient.
| Depth & SNP SNP frequency is shown in an inner box on depth background.

Mouse
| Drag Horizontally on the map.
| Double click to zoom in around the clicked point.
| Click on an accession name for changing the reference. Click again to restore the reference to the default setting.

Shortcut keys
Movements
← | Moving to the left side window.
→ | Moving to the right side window.
<space> | Moving to the right side window.
<home> | Moving to the head of current chr.
<end> | Moving to the tail of current chr.
↑ | Zoom in.
<+> | Zoom in.
<-> | Zoom out.
↓ | Zoom out.
Display modes
p | DEPTH only
s | SNP only
i | INDEL only
a | SNP and INDEL
d | Show/Hide indicator on map.
n | Show/Hide DEPTH=0
e | On/Off snpEff
b | On/Off Snpblock
h | This manual page.

You will lose just all of your settings. (Data won't be deleted.)
* It will be reloaded when restore.

* It will be reloaded.

| : Number of blocks
| : Block Height
| : Block Width

- □ LEVEL 0
  - INTERGENIC
- ▓ LEVEL 1
  - UPSTREAM
  - DOWNSTREAM
- ▓ LEVEL 2
  - UTR_5_PRIME
  - UTR_3_PRIME
  - REGULATION
  - INTRAGENIC
  - GENE
  - INTRON_CONSERVED
  - INTRON
  - INTERGENIC_CONSERVED
- ▓ LEVEL 3
  - SYNONYMOUS_START
  - NON_SYNONYMOUS_START
  - START_GAINED
  - SYNONYMOUS_CODING
  - SYNONYMOUS_STOP
  - EXON
  - CDS
  - TRANSCRIPT
- ▓ LEVEL 4
  - NON_SYNONYMOUS_CODING
  - CODON_CHANGE
  - CODON_INSERTION
  - CODON_CHANGE_PLUS_CODON_INSERTION
  - CODON_DELETION
  - CODON_CHANGE_PLUS_CODON_DELETION
  - UTR_5_DELETED
  - UTR_3_DELETED
- ▓ LEVEL 5
  - SPLICE_SITE_ACCEPTOR
  - SPLICE_SITE_DONOR
  - START_LOST
  - EXON_DELETED
  - FRAME_SHIFT
  - STOP_GAINED
  - STOP_LOST
  - RARE_AMINO_ACID
What is snpEff?