Index of /genome/Daphnia_species_genomes/dmag20pubasm/daphmag10asm_folder
Name Last modified Size Description
Parent Directory 19-Mar-2015 20:25 -
altassembly/ 12-Sep-2016 20:34 -
daphmag_chrassemblies_201512.txt 03-Jan-2016 15:15 9k
dmagna-asm24quality.txt 07-May-2010 16:41 8k
dmagna-asm24readmapstats.txt 21-Sep-2015 01:07 5k
dmagna-v2.4-20100422-assembly.fa.count 25-Apr-2010 15:52 1.3M
dmagna-v2.4-20100422-assembly.fa.gapcount 25-Apr-2010 15:48 1k
dmagna-v2.4-20100422-assembly.fna.gz 16-Apr-2010 12:03 34.2M
dmagna-v2.4-20100422-assembly.summary 16-Apr-2010 12:02 5k
dmagna20100422assembly.summary 15-Oct-2014 13:18 3k
dmagna2010mitodna.fa 06-Jul-2013 17:32 14k
dmagna2010mitodna.info 06-Jul-2013 17:48 1k
dpulex_genes2_dmagna24asm.tblastn.gff.gz 26-Apr-2010 16:32 3.2M
genbank_submit/ 25-Jan-2016 19:41 -
This is a draft genome assembly of Daphnia magna 454 sequences from 2010.
See http://server7.wfleabase.org/genome/Daphnia_magna/
It is also available in early 2016 via BioProject PRJNA298946
"Daphnia magna strain:Xinb3 Genome sequencing and assembly"
and has been deposited at DDBJ/EMBL/GenBank under accession LRGB00000000, version LRGB01000000.
Folder genbank_submit/ has this gene-annotated, corrected assembly as submitted to GenBank.
Some statistics including alternate assemblies are found in
daphmag_chrassemblies_201512.txt (2015).
TABLE A5. Assembly details for dmag10asm, Newbler v.2.3 (091027_1459)
= this dmagna-v2.4-20100422-assembly
TABLE A1. Chromosome assemblies of Daphnia magna, 12? chromosomes, of size
estimated at 220 megabases (flow cyto. [ref]), and 227 mb (newbler)
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Chr_assembly Megabases N50 N50s Big AsmMethod DataSource
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a. dmag10asm 108 64 293k 3.1m Newbler,2010 3209mb/15m 454 reads = dmagna-v2.4-20100422-assembly
b. dmag24nwb7d 118 68 304k 2.8m Newbler,2013 3209mb/15m 454 reads = altassembly/nwbdmag24g7d_asm
.. more ..
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TABLE A2. Gene mappings to chromosome assemblies
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Chr_assembly Gene locus mapping counts
nSingle nDuplicate nMapped noMap nSplit*
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a. dmag10asm 25729 434 (205) 26163 3200 5399
b. dmag24nwb7d 25856 602 (285) 26458 2993 3366
.. more ..
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