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Index of /EvidentialGene/daphnia/daphnia_magna/Genome

      Name                                      Last modified       Size  

[DIR] Parent Directory 19-Mar-2015 20:25 - [DIR] altassembly/ 12-Sep-2016 20:34 - [TXT] daphmag_chrassemblies_201512.txt 03-Jan-2016 15:15 9k [TXT] dmagna-asm24quality.txt 07-May-2010 16:41 8k [TXT] dmagna-asm24readmapstats.txt 21-Sep-2015 01:07 5k [TXT] dmagna-v2.4-20100422-assembly.fa.count 25-Apr-2010 15:52 1.3M [TXT] 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 [TXT] dmagna-v2.4-20100422-assembly.summary 16-Apr-2010 12:02 5k [TXT] dmagna20100422assembly.summary 15-Oct-2014 13:18 3k [TXT] dmagna2010mitodna.fa 06-Jul-2013 17:32 14k [TXT] dmagna2010mitodna.info 06-Jul-2013 17:48 1k [   ] dpulex_genes2_dmagna24asm.tblastn.gff.gz 26-Apr-2010 16:32 3.2M [DIR] 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)
----------------------------------------------------------------------
Chr_assembly  Megabases  N50  N50s  Big    AsmMethod     DataSource
----------------------------------------------------------------------
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 ..
----------------------------------------------------------------------

TABLE A2. Gene mappings to chromosome assemblies
--------------------------------------------------------------------
Chr_assembly         Gene locus mapping counts
                  nSingle nDuplicate  nMapped noMap  nSplit*  
--------------------------------------------------------------------
a. dmag10asm       25729   434 (205)   26163   3200   5399 
b. dmag24nwb7d     25856   602 (285)   26458   2993   3366
.. more ..
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Developed at the Genome Informatics Lab of Indiana University Biology Department