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Index of /EvidentialGene/arthropods/triboliumbeetle/evg2tribol/aaeval

      Name                                         Last modified       Size  

[DIR] Parent Directory 30-Jun-2015 22:54 - [TXT] beetle4enoculset-refarp7s8set2.arpbest5algn 23-Dec-2014 20:40 4.7M [TXT] beetle4enoculset-refarp7s8set2.arpinfo7algn 23-Dec-2014 20:53 1k [TXT] cddr-trib3eucul-domtab.paired5 23-Dec-2014 21:46 1.2M [TXT] beetle4enoculset-refarp7s8set2.arpbest5bits 23-Dec-2014 22:53 4.7M [TXT] beetle4enoculset-refarp7s8set2.arpinfo7bits 23-Dec-2014 22:54 1k [TXT] beetle4enoculset-refarp7s8set2.arpeachp8algn 25-Dec-2014 13:01 3.5M [DIR] abpix/ 25-Dec-2014 23:42 -

Tables of tribolium gene set comparisons (4 gene sets) to reference proteins
and conserved domains (cddr-) for orthology completeness measure.  Summary
tables arpinfo7algn and arpinfo7bits are averages for alignment and bitscore
measures from protein blast.  Tables arpbest5algn and arpbest5bits are per-gene
tabulations of these scores.  arpeach8algn is a per reference family tabulation 
of these, plotted in abpix/arp7genesalgn8_Tribolium0,1000,5000
to show relative alignment of gene sets to reference families of difference
protein size.  The alignment and bitscore measures give same relative rankings
of gene sets, but differ in details.

cddr-trib3eucul-domtab.paired5 table has one row for each eukaryote conserved domain 
(NCBI CDD, 2014.10), with deltablastp bitscore, identity and alignment values for each of 3 gene sets.
Bitscore is misleading for CDD as length of target protein influences this but
domain is fixed subspan in any sized protein.

Developed at the Genome Informatics Lab of Indiana University Biology Department