PAL2NAL output

CLUSTAL W multiple sequence alignment

OR1E5_PANTR    ATGATGGGACAAAATCAAACCAGCATCTCAGACTTCCTGCTCCTGGGCCTGCCCATCCAA
OR1J2_HUMAN    ATGAGCCCTGAGAACCAGAGCAGCGTGTCCGAGTTCCTCCTTCTGGGCCTCCCCATCCGG

OR1E5_PANTR    CCAGAGCAGCAAAACCTGTGCTATGCCCTGTTCTTGGCCATGTATCTTACCACCCTCCTG
OR1J2_HUMAN    CCAGAGCAGCAGGCTGTGTTCTTCACCCTGTTCCTGGGCATGTACCTGACCACGGTGCTG

OR1E5_PANTR    GGGAACCTCCTCATCATTGTCCTCATTCGACTGGACTCCCATCTCCACACGCCTATGTAT
OR1J2_HUMAN    GGGAACCTGCTCATCATGCTGCTCATCCAGCTGGACTCTCACCTTCACACCCCCATGTAC

OR1E5_PANTR    TTGTTTCTCAGCAACTTGTCCTTCTCTGACCTCTGCTTCTCTTCCGTGACCATTCCCAAG
OR1J2_HUMAN    TTCTTCCTCAGCCACTTGGCTCTCACTGACATCTCCTTTTCATCTGTCACTGTCCCTAAG

OR1E5_PANTR    TTGTTACAGAACATGCAGAACCAGGACCCATCCATCCCCTATGCGGACTGCCTGACCCAA
OR1J2_HUMAN    ATGCTGATGGACATGCGGACTAAGTACAAATCGATCCTCTATGAGGAATGCATTTCTCAG

OR1E5_PANTR    ATGTACTTCTTCCTATTATTTGGAGACCTGGAGAGCTTCCTCCTTGTGGCCATGGCCTAT
OR1J2_HUMAN    ATGTATTTTTTTATATTTTTTACTGACCTGGACAGCTTCCTTATTACATCAATGGCATAT

OR1E5_PANTR    GACCGCTATGTGGCCATCTGCTTCCCCCTGCACTACACCGCCATCATGAGCCCCATGCTC
OR1J2_HUMAN    GACCGATATGTTGCCATATGTCACCCTCTCCACTACACTGTCATCATGAGGGAAGAGCTC

OR1E5_PANTR    TGTCTCTCCCTGGTGGCGCTGTCCTGGGTGCTGACCACCTTCCATGCCATGTTACACACT
OR1J2_HUMAN    TGTGTCTTCTTAGTGGCTGTATCTTGGATTCTGTCTTGTGCCAGCTCCCTCTCTCACACC

OR1E5_PANTR    TTACTCATGGCCAGGTTGTGTTTTTGTGCAGACAATGTGATCCCCCACTTTTTCTGTGAT
OR1J2_HUMAN    CTTCTCCTGACCCGGCTGTCTTTCTGTGCTGCGAACACCATCCCCCATGTCTTCTGTGAC

OR1E5_PANTR    ATGTCTGCTCTGCTGAAGCTGGCCTGCTCTGACACTCGAGTTAATGAATGGGTGATATTT
OR1J2_HUMAN    CTTGCTGCCCTGCTCAAGCTGTCCTGCTCAGATATCTTCCTCAATGAGCTGGTCATGTTC

OR1E5_PANTR    ATCATGGGAGGGCTCATTGTTGTCATCCCATTCCTACTCATCCTTGGGTCCTATGCAAGA
OR1J2_HUMAN    ACAGTAGGGGTGGTGGTCATTACCCTGCCATTCATGTGTATCCTGGTATCATATGGCTAC

OR1E5_PANTR    ATTGTCTCCTCCATCCTCAAGGTCCCTTCTTCTAAGGGTATCTGCAAGGCCTTCTCTACT
OR1J2_HUMAN    ATTGGGGCCACCATCCTGAGGGTCCCTTCAACCAAAGGGATCCACAAAGCATTGTCCACA

OR1E5_PANTR    TGTGGCTCCCACCTCTCTGTGGTGTCACTGTTCTATGGGACCATTATTGGTCTCTACTTA
OR1J2_HUMAN    TGTGGCTCCCATCTCTCTGTGGTGTCTCTCTATTATGGGTCAATATTTGGCCAGTACCTT

OR1E5_PANTR    TGCCCATCAGCTAATAGTTCTACTCTAAAGGAGACTGTCATGGCTATGATGTACACTGTG
OR1J2_HUMAN    TTCCCGACTGTAAGCAGTTCTATTGACAAGGATGTCATTGTGGCTCTCATGTACACGGTG

OR1E5_PANTR    GTGACCCCCATGCTGAACCCCTTCATCTACAGCCTGAGGAACAGAGACATGAAGGGAGCC
OR1J2_HUMAN    GTCACACCCATGTTGAACCCCTTTATCTACAGCCTTAGGAACAGGGACATGAAAGAGGCC

OR1E5_PANTR    CTGGAAAGGGTCATTYGTAAAAGGCCCTTCCTTCTA
OR1J2_HUMAN    CTTGGGAAACTCTTCAGTAGAGCAACATTTTTCTCT

Synonymous (K_S) and non-synonymous (K_A) substitution rates calcualted by codeml in the PAML package:
	K_S = 2.5281
	K_A = 0.2550
	K_A/K_S = 0.1008
If you use these values, please cite the following peper:
	Goldman, N. and Yang, Z. 1994. A codon-based model of nucleotide substitution for protein-coding DNA sequences. Molecular Biology and Evolution 11:725-736.