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Codon adaptation index analysis

SP Shuonan Pan
CM Chunxiao Mou
HW Huiguang Wu
ZC Zhenhai Chen
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The codon adaptation index (CAI) is a quantitative value that is used to estimate the adaptiveness of a gene toward the codons of highly expressed genes [36]. The values of the CAI range from 0 to 1. The sequence with the higher CAI value is thought to be the preferred adaptiveness. The CAI values for all APPV genes were calculated using CAIcal [37]. The reference datasets of synonymous codon usage patterns of the pig (Sus scrofa) were downloaded from the Codon and Codon Pair Usage Tables (CoCoPUTs) database [38] updated in January 2020.

Copyright and License information:  ©2020 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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