Supplemental Material for Hruska and Manthey, 2020

Supplemental File S1 contains information on the location and status of avesodb9 BUSCO gene sets. Supplemental File S2 contains a list of the missing avesodb9 BUSCO gene sets. Supplemental File S3 contains a summary of avesodb9 BUSCO gene sets. Supplemental File S4 contains information on the location and status of avesodb10 BUSCO gene sets. Supplemental File S5 contains a list of the missing avesodb10 BUSCO gene sets. Supplemental File S6 contains a summary of avesodb10 BUSCO gene sets.Supplemental File S7 contains information on the location and status of tetrapodsodb9 BUSCO gene sets. Supplemental File S8 contains a list of the missing tetrapodaodb9 BUSCO gene sets. Supplemental File S9 contains a summary of tetrapodaodb9 BUSCO gene sets. Supplemental File S10 contains information on the location and status of tetrapodsodb10 BUSCO gene sets. Supplemental File S11 contains a list of the missing tetrapodaodb10 BUSCO gene sets. Supplemental File S12 contains a summary of tetrapodaodb10 BUSCO gene sets. Supplemental File S13 contains the annotation information following the second round of MAKER. Supplemental File S14 contains the fasta sequences of CDS regions in the Caur_TTU_1.0 assembly discovered after the second round of MAKER. Supplemental File S15 contains the custom repeat library constructed using an earlier version of the Colaptes auratus genome and genomes from other songbird projects. File S16 contains the output from RepeatMasker, summarizing repetitive content in the Caur_TTU_1.0 assembly. File S17 contains information on the location and characteristics of the repetitive content in the Caur_TTU_1.0 assembly. .File S18_colaptes_reordered_filtered.txt is a tab-delimited text file that includes information on the position, percent identity, and length of each alignment that was produced using MUMMER’s show-coords module. File S19_cds_summary_and_mapping.txt obtains information on the genes where Colaptes and the other species (Apaloderma, Buceros and Merops) have reciprocal best hits for Colaptes genes, which were later used as input for the estimation of a Colaptes-specific mutation rate.补充文件S1包含avesodb9单拷贝直系同源基因基准集（BUSCO）的位置与状态信息。补充文件S2包含缺失的avesodb9 BUSCO基因集列表。补充文件S3包含avesodb9 BUSCO基因集的汇总信息。补充文件S4包含avesodb10 BUSCO基因集的位置与状态信息。补充文件S5包含缺失的avesodb10 BUSCO基因集列表。补充文件S6包含avesodb10 BUSCO基因集的汇总信息。补充文件S7包含tetrapodsodb9 BUSCO基因集的位置与状态信息。补充文件S8包含缺失的tetrapodaodb9 BUSCO基因集列表。补充文件S9包含tetrapodaodb9 BUSCO基因集的汇总信息。补充文件S10包含tetrapodsodb10 BUSCO基因集的位置与状态信息。补充文件S11包含缺失的tetrapodaodb10 BUSCO基因集列表。补充文件S12包含tetrapodaodb10 BUSCO基因集的汇总信息。补充文件S13包含第二轮MAKER注释后的注释信息。补充文件S14包含经第二轮MAKER注释后，在Caur_TTU_1.0组装版本中鉴定得到的编码序列（CDS）区域的FASTA序列。补充文件S15包含基于早期版本的金翅啄木鸟（Colaptes auratus）基因组以及其他鸣禽项目基因组构建的自定义重复序列库。文件S16包含RepeatMasker的输出结果，汇总了Caur_TTU_1.0组装版本中的重复序列组成情况。文件S17包含Caur_TTU_1.0组装版本中重复序列的位置与特征信息。文件S18_colaptes_reordered_filtered.txt为制表符分隔的文本文件，包含使用MUMMER的show-coords模块生成的每条比对序列的位置、序列一致性百分比以及比对长度信息。文件S19_cds_summary_and_mapping.txt包含如下信息：针对金翅啄木鸟（Colaptes auratus）的基因，其与其他物种（鳞甲拟鴷属Apaloderma、犀鸟属Buceros及蜂虎属Merops）的基因间存在双向最佳同源比对（reciprocal best hits）的相关基因数据，此类基因后续被用作估算金翅啄木鸟特异性突变率的输入数据集。