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. 2017 Aug 18;9(8):228. doi: 10.3390/v9080228

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© 2017 by the authors.

Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).

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Multiple sequence alignment of (A) 6K and (B) TF with representatives from all International Committee on the Taxonomy of Viruses [57] recognized alphavirus species, and the newly discovered Taï Forest virus [42]. Sequences were retrieved from GenBank [58] with the accession numbers that follow. The 6K and TF translations were then aligned with the online PRALINE multiple sequence alignment program using the default parameters for homology-extended alignment [59,60,61,62]. The order in which the viruses are listed follows their relationships according to phylogeny, see [40]. The colored boxes across the bottom represent the consistency score (on a scale of 0–9 *), where blue is least conserved and red is most conserved. Scores of 8 or above are highlighted. Virus abbreviations and accession numbers are as follows: Everglades virus (AF075251) (EVEV); Venezuelan equine encephalitis virus (NC_001449) (VEEV); Tonate virus (AF075254) (TONV); Mucambo virus (AF075253) (MUCV); Cabassou virus (AF075259) (CABV); Pixuna virus (AF075256) (PIXV); Rio Negro virus (AF075258) (RNV); Mosso das Pedras virus (AF075257) (MDPV); eastern equine encephalitis virus (NC_003899) (EEEV); Madariaga virus (NC_023812) (MADV); western equine encephalitis virus (NC_003908) (WEEV); Highlands J virus (HM147988) (HJV); Fort Morgan virus (NC_013528) (FMV); Buggy Creek virus (HM147986) (BCRV); Sindbis virus (NC_001547) (SINV); SINV strain Babanki virus (HM14798); SINV strain Ockelbo virus (M69205); SINV strain Kyzylagach virus (AF339478); Whataroa virus (HM147993) (WHAV); Aura virus (NC_003900) (AURAV); Trocara virus (HM14799) (TROV); Barmah Forest virus (NC_001786) (BFV); Ndumu virus (HM147989) (NDUV); Middelburg virus (EF536323) (MIDV); Getah virus (NC_006558) (GETV); Sagiyama virus (AB032553) (SAGV); Ross River virus (DC5692) (RRV); Semliki Forest virus (NC_0032) (SFV); Bebaru virus (NC_016962) (BEBV); Mayaro virus (NC_003417) (MAYV); Una virus (AF339481) (UNAV); Chikungunya virus (YP_006491244) (CHIKV); O’nyong-nyong virus (M33999) (ONNV); Eilat virus (NC_018615) (EILV); Taï Forest virus (NC_032681) (TALV); southern elephant seal virus (HM147990) (SESV); salmon pancreas disease virus (AJ316244) (SPDV); sleeping disease virus (NC_003433) (SDV).