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Chromosomal length prunus dulcis

Is it possible to find the chromosomal length of prunus dulcis?

https://www.rosaceae.org/organism/Prunus/dulcis

I want to use it to build circus plots.

chromosomes length non-model
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updated by AK AK • written by felipead66 felipead66

Thank you for your reply,

I followed the instructions in the link and I would not trust it since I get around 10000 (!) chromosomes. So there must be something else, I do not know what went wrong.

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written by felipead66 felipead66

The rest (with ID such as pdulcis26_s0345) are the unplaced/unanchored scaffolds during assembly.

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written by AK AK

1 answer

Hi felipead66,

Given the chromosome number 2n=16 from here, you can calculate the length from the assembly: 

$ curl -s "ftp://ftp.bioinfo.wsu.edu/www.rosaceae.org/Prunus_dulcis/pdulcis_v2.0/assembly/pdulcis26.chromosomes.fasta.gz" | zcat - | seqkit fx2tab --name --length | head -n8
Pd01            43996934
Pd02            26138581
Pd03            24073526
Pd04            24375383
Pd05            18233718
Pd06            29596931
Pd07            21340587
Pd08            20428636
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written by AK AK

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