You can download plugin results files from links that are contained in the File Links section of the Molecular Coverage Analysis Report. The output is a tab-separated text file with an XLS file extension.
Click 
(Help) next to the file to open a description of the file.
The following is an example of the content of a results file that is generated by the molecular Coverage Analysis plugin.
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Setting
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Description
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Coverage statistics summary
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This section of the file is a summary of the statistics presented in the tables at the top of the Molecular Coverage Analysis Report plugin report. The first line is the title. Each subsequent line is either blank or a particular statistic title followed by a colon (:) and its value.
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Amplicon molecular coverage summary
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This section of the Amplicon molecular coverage summary file contains the following fields.
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contig_id: the name of the chromosome or contig (from contiguous) of the reference for this amplicon.
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contig_srt: the start location of the amplicon target region. This coordinate is 1-based, unlike the corresponding 0-based coordinate in the original targets BED file.
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contig_end: the last base coordinate of this amplicon target region. The length of the amplicon target is given as (contig_end - contig_srt + 1).
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region_id: the ID for this amplicon as given as the 4th column of the targets BED file.
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gene_id or attributes: the gene symbol or attributes field as provided in the targets BED file.
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func_mol_cov: the number of molecules (functional molecules) which are available for the variantCaller plugin.
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lod: LOD (limitation of detection) calculated from the number of functional molecules.
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strict_func_umt_rate: the percentage of functional molecules used with strict molecular tags.
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func_mol_cov_loss_due_to_strand: the percentage of functional molecules loss due to strand bias.
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fwd_only_mol_cov: the number of molecules containing forward strand only.
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rev_only_mol_cov: the number of molecules containing reverse strand only.
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both_strands_mol_cov: the number of molecules containing both forward strand and reverse strand.
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r2m_conv_rate_all: the percentage of reads contributed to functional molecules.
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reads_per_func_mol: the average reads per functional molecules.
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perc_to_mol_(<3_reads): the percentage of reads contributed to small size molecules(size<3).
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perc_to_mol_(>=3&<30_reads): the percentage of reads contributed to median size molecules (size ≥3 && size <30).
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perc_to_mol_(>=30_reads): the percentage of reads contributed to large size molecules (size ≥30).
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