Targets: | : - |
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Flanking region(bp):
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* Maximum size is 10,000 bp |
Avoiding primer design around target(bp): |
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Quality: | >= |
DP: | >= |
Variant sites masking: | |
Note: The sequence 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. |
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General settings
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Product size range: | - |
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Primer optimum size: | |
Primer max size: | |
Primer min size: | |
Primer optimum TM: | |
Primer max TM: | |
Primer min TM: | |
Max TM diffrence: | |
Primer lowercase masking: |
History
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Previous result is not found.
Targets: | : - |
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Flanking region(bp):
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* Maximum size is 10,000 bp |
Avoiding primer design around target(bp): |
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Quality: | >= |
DP: | >= |
Variant sites masking: | |
Note:
The sequence being exported with this option 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 above the threshold of depth and quality user set. |
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Visible lists | Hidden lists | |||
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ID or NAME Subtitle Width |
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Keyword | ||
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* The keyword must has over 4 strings. | ||
Position | bp | |
History |
: Quality of Variant | |
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: Depth of All reads | |
: Depth of Alternative allele |
Modes shown below can be changed at menu bar. |
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SNP only SNP frequency is shown by blue gradient. Regions with no mapped reads are highlighted with yellow. |
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DEPTH Average depth value of the block is shown by gray gradient. |
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Depth & SNP SNP frequency is shown in an inner box on depth background. |
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Drag Horizontally on the map. |
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Double click to zoom in around the clicked point. |
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Click on an accession name for changing the reference. Click again to restore the reference to the default setting. |
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You will lose just all of your settings. (Data won't be deleted.) |
* It will be reloaded when restore. |
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* It will be reloaded. |
: Number of blocks | |
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: Block Height | |
: Block Width |