The penalty on the position-based score for exons when an exon had a phase change was removed because it meant that an exon whose sequence and position had not changed would become a candidate for similarity mapping.  This caused lots of criss-crossing stable ID history entries between genes/transcripts/translations in some gene families.
The penalty on the position-based score for exons when an exon had a
phase change was removed because it meant that an exon whose sequence
and position had not changed would become a candidate for similarity
mapping.  This caused lots of criss-crossing stable ID history entries
between genes/transcripts/translations in some gene families.

danstaines/ensembl,james-monkeyshines/ensembl,muffato/ensembl,Ensembl/ensembl,Ensembl/ensembl,at7/ensembl,at7/ensembl,james-monkeyshines/ensembl,mjg17/ensembl,danstaines/ensembl,james-monkeyshines/ensembl,mjg17/ensembl,muffato/ensembl,danstaines/ensembl,willmclaren/ensembl,at7/ensembl,Ensembl/ensembl,willmclaren/ensembl,mjg17/ensembl,Ensembl/ensembl,muffato/ensembl,muffato/ensembl,mjg17/ensembl,james-monkeyshines/ensembl,at7/ensembl