61b8f5004b8c9249e46f1b87fe9d34c369b97450 angie Thu Mar 23 13:30:50 2023 -0700 Adding some sequences for older proposed recombinants that would be removed from the tree by a harsher application of filters otherwise. diff --git src/hg/utils/otto/sarscov2phylo/includeRecombinants.tsv src/hg/utils/otto/sarscov2phylo/includeRecombinants.tsv index 4d97d6c..8fd4df0 100644 --- src/hg/utils/otto/sarscov2phylo/includeRecombinants.tsv +++ src/hg/utils/otto/sarscov2phylo/includeRecombinants.tsv @@ -5,63 +5,72 @@ England/ALDP-325CFB2/2022 422 OV626513.1 422 OV628319.1 422 OV720067.1 422 OV721520.1 422 EPI_ISL_8166781 422 EPI_ISL_8610834 422 EPI_ISL_8865709 422 EPI_ISL_8898412 422 EPI_ISL_8438332 437 EPI_ISL_10262189 437 EPI_ISL_10263151 437 EPI_ISL_10263152 437 EPI_ISL_10261577 437 EPI_ISL_10305529 437 +EPI_ISL_11157235 437 +EPI_ISL_11632598 437 +EPI_ISL_11632599 437 +EPI_ISL_11632600 437 +EPI_ISL_11993539 437 +EPI_ISL_11750046 437 OM392955.1 439 OM393452.1 439 OM372355.1 439 OM344043.1 439 OM344166.1 439 OM344238.1 439 -OM272834.1 439 +OM272834.2 439 OM835119.1 439 OM835120.1 439 EPI_ISL_8720194 439 EPI_ISL_8981459 439 EPI_ISL_8981712 439 EPI_ISL_8981824 439 EPI_ISL_9088187 439 EPI_ISL_9147438 439 EPI_ISL_9147935 439 EPI_ISL_10389336 439 EPI_ISL_10389339 439 +England/NORT-YNNYFNT/2022 441 England/PLYM-32FEF76/2022 441 England/PLYM-332E079/2022 441 England/PLYM-332E510/2022 441 England/PLYM-336A651/2022 441 England/PLYM-33BB5CD/2022 441 OV757286.1 441 OV758622.1 441 OV768982.1 441 OV781287.1 441 OV807225.1 441 +OX069043.1 441 EPI_ISL_9125312 441 EPI_ISL_9175215 441 EPI_ISL_9026013 441 EPI_ISL_9062592 441 EPI_ISL_9296739 441 +EPI_ISL_10630040 441 EPI_ISL_9959921 444 XD EPI_ISL_9879437 444 XD EPI_ISL_9879436 444 XD EPI_ISL_9863764 444 XD EPI_ISL_9857381 444 XD EPI_ISL_9791275 444 XD EPI_ISL_9449070 444 XD EPI_ISL_9166910 444 XD EPI_ISL_9518370 444 XD EPI_ISL_9791300 444 XD EPI_ISL_10096770 444 XD EPI_ISL_10014373 444 XD EPI_ISL_10207240 444 XD EPI_ISL_10210832 444 XD EPI_ISL_10352397 444 XD