I have two sequence here which trans to phylip format:
2 333
insulinOc ATGGCCCCGT GGATGCATCT CCTCACCGTG CTGGCCCTGC TGGCCCTCTG
insulinOv ATGGCCCTGT GGACACGCCT GGTGCCCCTG CTGGCCCTGC TGGCACTCTG
GGGACCCAAC TCTGTTCAGG CCTATTCCAG CCAGCACCTG TGCGGCTCCA
GGCCCCCGCC CCGGCCCACG CCTTCGTCAA CCAGCACCTG TGCGGCTCCC
ACCTAGTGGA GGCACTGTAC ATGACATGTG GACGGAGTGG CTTCT---AT
ACCTGGTGGA GGCGCTGTAC CTGGTGTGCG GAGAGCGCGG CTTCTTCTAC
AGACCCCACG ACCGCCGAGA GCTGGAGGAC CTCCAGGTGG AGCAGGCAGA
ACGCCCAAGG CCCGCCGGGA GGTGGAGGGC CCCCAGGTGG GGGCGCTGGA
ACTGGGTCTG GAGGCAGGCG GCCTGCAGCC TTCGGCCCTG GAGATGATTC
GCTGG--CCG GAGGC----- -CCCGGCGCG GGTGGCC-TG GAGGGGCCCC
TGCAGAAGCG CGGCATTGTG GATCAGTGCT GTAATAACAT TTGCACATTT
CGCAGAAGCG TGGCATCGTG GAGCAGTGCT GCGCCGGCGT CTGCTCTCTC
AACCAGCTGC AGAACTACTG CAATGTCCCT TAG
TACCAGCTGG AGAACTACTG TAACTAG--- ---
but when i load it into yn00,
the report is:
Error in sequence data file: I at 51 seq 1.Make sure to separate the sequence from its name by 2 or more spaces.
I have tried many ways to trans a fasta format to phy formant, each of them will report the error like this.
Hi Song Lin
Did you know that codeml also accepts FASTA files? I was always running into this error too with the phylip format, and discovered the FASTA file of the alignment works just fine.
I just use the phylip format for creating my phylogenetic tree (phyml) and then the fasta for PAML.
Rose
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