Defining the mutation sites in chickpea nodulation mutants PM233 and PM405

BMC Plant Biology

Table 1 Outcomes of variant and candidate gene identification pipeline in chickpea mutants

Legend: The listed variant counts are those remaining after implementation of each respective filtration step. The Total column includes all variants found before filtering. The CDS (coding sequence) column includes remaining variants after filtering only for variants found within coding sequence. The Unique column are all variants found only within a single chickpea line. The 2 Alleles column are variants with 2 alelles. The Read Depth column are variants with a read depth of at least 2. The Min Allele Frequency are variants where the alternate allele (the one not matching to the reference sequence) had a frequency of at least 0.9. The Manual IGV (Integrative Genomics Viewer) Check column included variants confirmed after manual confirmation using IGV (i.e. variants which were present in other chickpea lines but not called as variants were excluded)

ISSN: 1471-2229