|
chr
|
chromosome (or another sequence) name is which search has been carried out
|
|
chain
|
chain
|
|
pos(dir.ch.)
|
(nt.) pseudogene start position (in direct chain)
|
|
len(nt.)
|
(nt.) pseudogene length. Note thate pseudogene lies from the right of 'pos(dir.ch)'
|
|
identity
|
(%) Identity with a protein (0...100%).
|
|
coverage
|
(%) Coverage of a protein with alignment
|
|
Ka/Ks
|
ratio calulated by Nei-Gojobori method
|
|
uali.head
|
(yes/no) first codon of alignment is ATG
|
|
uali.tail
|
(yes/no) last codon of alignment is stop-codon
|
|
exons#,lower
|
number of exons, lower estimation
|
|
exons#,upper
|
number of exons, upper estimation
|
|
polyA
|
(yes/no) there is a polyA tail at the 3' terminus of alignment
|
|
polyA_signal
|
(yes/no) there is a polyA signal at the 3' terminus of alignment
|
|
corr.stops#
|
number of correctable (by one mismatch) in-frame stop codons
|
|
uncorr.stops#
|
number of uncorrectable (by one mismatch) in-frame stop codons
|
|
corr.frameshifts#
|
number of correctable (by one-nucleotide instertion/deletion) frameshifts
|
|
uncorr.frameshifts#
|
number of incorrectable (by one-nucleotide instertion/deletion) frameshifts
|
|
prototype_chr
|
chromosome of prototype protein gene
|
|
prototype_prot_name
|
prototype protein gene name
|
|
prototype_exon#,lower
|
number of exons of prototype prot. gene, lower estimation
|
|
prototype_exon#,upper
|
number of exons of prototype prot. gene, upper estimation
|
|
DNA_identity
|
Identity between prototype gene and pseudogene at the level of DNA
|
|
CDS length
|
(nt.) CDS length
|
