(A) Alignment of CSE from all known alphaviruses to date for which the 3′-end is complete. (*) CHIKV NC_004162, Mayaro NC_003417, VEEV Venezuelan Equine Encephalitis virus NC_001449, Aura NC_003900, EEEV Eastern Equine Encephalitis virus NC_003899, Madariaga NC_023812, Mucambo NC_038672, Mwinilunga LC361437, Tai Forest NC_032681, Fort Morgan NC_013528, Cabassou NC_038670, Rio Negro NC_038674, Mosso das Pedras NC_038857, Pixuna NC_038673, Tonate NC_038675, Everglades NC_038671, O'nyong nyong NC_001512, Igbo Ora AF079457, SINV NC_001547, WEEV Western equine encephalitis virus NC_003908, Highlands J NC_012561, SESV Southern elephant seal virus HM147990, Babanki HM147984, Whataroa NC_016961, Ockelbo M69205, SINV MF589985, MF409177. (**) Ross River MH987781 plus others, Barmah Forest MN115377 plus others, Alphavirus M1 EF011023, Getah NC_006558, Sagiyama AB032553. (B) Putative hairpin structures formed by the CSE in diverse alphaviruses. (SDV) Sleeping disease virus. (C) Putative pseudoknot structures involving the poly(A) tail.
