6.1 Supported Formats
Table 6-1
contains the formats supported by Readseq. ID is a number that can be used for this
format (name is prefered). Alternate Names are separated by using the | character.
You can use any of these names to specify a format. R and W
indicate if Readseq can read and write this format. I means the format is interleaved. F indicates that sequence record documentation
and features are parsed. S indicates
that the format contains sequence data. Content-type is the magic string sent for that
format through a CGI web server. The suffix is the standard file suffix used for
that format.
Table 6-1. Supported formats for Readseq
|
1
|
GenBank|gb
|
T
|
T
|
F
|
T
|
T
|
biosequence/genbank
|
.gb
|
|
2
|
EMBL|em
|
T
|
T
|
F
|
T
|
T
|
biosequence/embl
|
.embl
|
|
3
|
Pearson|Fasta|fa
|
T
|
T
|
F
|
F
|
T
|
biosequence/fasta
|
.fasta
|
|
4
|
GCG
|
T
|
T
|
F
|
F
|
T
|
biosequence/gcg
|
.gcg
|
|
5
|
MSF
|
T
|
T
|
T
|
F
|
T
|
biosequence/msf
|
.msf
|
|
6
|
Clustal
|
T
|
T
|
T
|
F
|
T
|
biosequence/clustal
|
.aln
|
|
7
|
NBRF
|
T
|
T
|
F
|
F
|
T
|
biosequence/nbrf
|
.nbrf
|
|
8
|
PIR|CODATA
|
T
|
T
|
F
|
F
|
T
|
biosequence/codata
|
.pir
|
|
9
|
ACEDB
|
T
|
T
|
F
|
F
|
T
|
biosequence/acedb
|
.ace
|
|
10
|
Phylip3.2
|
T
|
T
|
T
|
F
|
T
|
biosequence/phylip2
|
.phylip2
|
|
11
|
Phylip|Phylip4
|
T
|
T
|
T
|
F
|
T
|
biosequence/phylip
|
.phylip
|
|
12
|
Plain|Raw
|
T
|
T
|
F
|
F
|
T
|
biosequence/plain
|
.seq
|
|
13
|
PAUP|NEXUS
|
T
|
T
|
T
|
F
|
T
|
biosequence/nexus
|
.nexus
|
|
14
|
XML
|
T
|
T
|
F
|
T
|
T
|
biosequence/xml
|
.xml
|
|
15
|
FlatFeat|FFF
|
T
|
T
|
F
|
T
|
F
|
biosequence/fff
|
.fff
|
|
16
|
GFF
|
T
|
T
|
F
|
T
|
F
|
biosequence/gff
|
.gff
|
|
17
|
BLAST
|
T
|
F
|
T
|
F
|
T
|
biosequence/blast
|
.blast
|
|
18
|
Pretty
|
F
|
T
|
T
|
F
|
T
|
biosequence/pretty
|
.pretty
|
|
19
|
SCF
|
T
|
F
|
F
|
F
|
T
|
biosequence/scf
|
.scf
|
|
20
|
DNAStrider
|
T
|
T
|
F
|
F
|
T
|
biosequence/strider
|
.strider
|
|
21
|
IG|Stanford
|
T
|
T
|
F
|
F
|
T
|
biosequence/ig
|
.ig
|
|
22
|
Fitch
|
F
|
F
|
F
|
F
|
T
|
biosequence/fitch
|
.fitch
|
|
23
|
ASN.1
|
F
|
F
|
F
|
F
|
T
|
biosequence/asn1
|
.asn
|
|
