On Thu, 2017-10-26 at 19:07 -0600, Rob Sargent wrote: > -> Nested Loop (cost=3799.40..44686205.23 rows=1361304413 width=40) > (actual time=55.443..89684.451 rows=75577302 loops=1) > -> Hash Join (cost=3798.98..43611.56 rows=823591 width=32) > (actual time=55.393..1397.509 rows=823591 loops=1) > -> Index Scan using marker_chrom_basepos_idx on base.marker m > (cost=0.42..37.67 rows=1653 width=20) > (actual time=0.010..0.075 rows=92 loops=823591) > Index Cond: ((m.chrom = 22) AND (m.basepos >= s.startbase) AND (m.basepos <= s.endbase)) I think your biggest problem is the join condition on m.basepos between s.startbase and s.endbase That forces a nested loop join, which cannot be performed efficiently. Yours, Laurenz Albe -- Sent via pgsql-general mailing list (pgsql-general@xxxxxxxxxxxxxx) To make changes to your subscription: http://www.postgresql.org/mailpref/pgsql-general
