Repeats and SSR analysis

YX Yicen Xu
BF Bo Fang
JL Jingling Li
YW Yuanwei Wang
JL Jingting Liu
CL Chang Liu
JY Jie Yu
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The GC content was conducted by using the cusp program provided by EMBOSS (v6.3.1) [63]. The simple sequence repeats (SSRs) were identified using the Online website MISA (https://webblast.ipk-gatersleben.de/misa/), including mono-, di-, tri-, tetra-, penta-, and hexanucleotides with the minimum numbers were 10, 5, 4, 3, 3, and 3, respectively [64]. Additionally, REPuter (https://bibiserv.cebitec.uni-bielefeld.de/reputer/) was used to calculate palindromic repeats, forward repeats, reverse repeats, and complement repeats with the settings: Hamming Distance was three, and Minimal Repeat Size was 30 bp [65].

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