VFDB annotation

choosefile   example

Function introduction

VFDB(Virulence Factors of Pathogenic Bacteria)database (http://www.mgc.ac.cn/VFs/main.htm) is used for specialized research of pathogenic bacteria, chlamydia and mycoplasma pathogenic factor. It contains 24 species, a total of 425 pathogenic factors, 24 pathogenic islands, 2,359 virulence factors related composition, structure, function, pathogenesis and genome information.The database can provide key evidence for the research on the invasion mechanism of pathogenic bacteria. Meanwhile, combining with comparative genomics and other analytical methods, it can be used for studying the virulence factor composition and genome distribution and other characteristics of different pathogenic bacteria at the whole genome level.
Input files

Fasta file of nucleic acid or amino acid query sequences.
1. Mapping and annotation results
2. Statistics of alignment
3. Distribution of E-values.

Example file

1. Mapping and annotation results

Query_id :ID of query sequences

Query_length:the length of input sequences

Query_start :the start position of query sequences covered by alignment

Query _end :the end position of query sequences covered by alignment

Subject_id :ID of mapped sequences in database

Subject_start:the start position of subject sequences covered by alignment

Subject_end:the end position of subject sequences covered by alignment

Identity(%) :identity of alignment (percentity)

Positive:the number of aligned bases or amino acids

Gap:number of gaps

Align_length:the length of sequences covered by alignment

Score:Score of alignment, the higher the better

E_value :Expcet values of alignment, the lower the better

Subject_annotation:  gene function description,species name.

2. Statistics of alignment

showing the number of mapped and unmapped results.

3. Distribution of E-values.

E value is the expected value of the alignment. The smaller the E value, the more the reliability. We divided the E value into five ranges and show the number with a pie chart.