Invert start and end coordinates when creating Bio::LocatableSeq underlying the Bio::SimpleAlign for sequences on the reverse strand and thus start > end in the output.
Invert start and end coordinates when creating Bio::LocatableSeq underlying the Bio::SimpleAlign for sequences on the reverse strand and thus start > end in the output.

kumarsaurabh20/ensembl-compara,danstaines/ensembl-compara,danstaines/ensembl-compara,etapanari/ensembl-compara,Ensembl/ensembl-compara,Ensembl/ensembl-compara,Ensembl/ensembl-compara,etapanari/ensembl-compara,kumarsaurabh20/ensembl-compara,ckongEbi/ensembl-compara,danstaines/ensembl-compara,dbolser-ebi/ensembl-compara,Ensembl/ensembl-compara,etapanari/ensembl-compara,ckongEbi/ensembl-compara,Ensembl/ensembl-compara,Ensembl/ensembl-compara,etapanari/ensembl-compara,danstaines/ensembl-compara,Ensembl/ensembl-compara,danstaines/ensembl-compara,dbolser-ebi/ensembl-compara,kumarsaurabh20/ensembl-compara,dbolser-ebi/ensembl-compara,kumarsaurabh20/ensembl-compara,ckongEbi/ensembl-compara,Ensembl/ensembl-compara