ecoPCR results

This dataset contains the processed output generated by the program ecoPCR (Ficetola et al., 2010) as fasta files. ecoPCR performs in silico PCRs of given primer pairs based on on a database (here the EMBL release 143, downloaded March 2021) without the standard releases of human, mouse or environmental sequences. Our simulated PCRs allowed for 3 mismatches in the primer binding sites, yet the last 2 nucleotide positions at the 3’end of each primer required a perfect match. The amplicon size range was determined from 50 to 500 nucleotides in the V3, V7 and V9 markers and to a maximum of 800 nucleotides for the V4 marker to account for its larger size.

本数据集包含由ecoPCR程序（Ficetola等人，2010年）生成的经处理的输出结果，格式为FASTA文件。ecoPCR程序可基于指定数据库（本次采用2021年3月下载的欧洲分子生物学实验室（EMBL）第143版数据库），针对给定引物对开展虚拟聚合酶链式反应（PCR），且该数据库未纳入人类、小鼠及环境序列的标准发布数据集。本次模拟PCR允许引物结合位点存在3处错配，但每条引物的3'末端的最后2个核苷酸位点必须完全匹配。针对V3、V7及V9可变区标记物，扩增子的长度范围设定为50至500个核苷酸；由于V4可变区标记物的序列更长，其扩增子长度上限设为800个核苷酸。