[Taxacom] quote of the week

Pierre Deleporte pierre.deleporte at univ-rennes1.fr
Tue Mar 25 09:42:02 CDT 2008 

here John  Grehan is (as recently predicted) reaching the point where he 
is implicitly exposing his 'clique analysis' method (as explained to him 
years ago); an extreme form of clique analysis in fact, for not only he 
tries to select a clique (possibly the largest?) of completely mutually 
compatible characters, but he discards all but homoplasy-free characters 
(however inconsistently in his own morphological data analysis 'by 
hand', as also explained years ago)

John seems (?) to have evolved in his consideration of outgroup 
criterion for rooting (he once rejected the possibility of performing 
any molecular phylogeny at all, and also using parsimony optimization 
programs, because molecular characters could not, supposedly, be 
polarized a priori one by one, as morphological characters were supposed 
to do, and programs did not explicitly asked for a priori polorization)

it would also seem that John is possibly (?) implicitly renouncing to 
his characterization of molecular data as being "phenetic in themselves" 
(if not, all his current discussion about ougroups in molecular analysis 
would be nonsensical: one could logically not improve parsimony analysis 
of intrinsically "phenetic data", if such a notion could mean anything 
at all)

but up to this date, John refused to analyse molecular data such a way, 
and refused to use existing computer programs for performing his own 
morphological analysis as well (e.g. using some 'clique' option in 
Felsenstein 's Phylogeny Inference Package - accessible for free on the 
web)

hence, for those interested, we still don't know what would be the 
result of such a molecular analysis, be it only for 'a few species', 
rooted or not, and much less for 'complete outgroup comparison' 
including all primates

please note, for curiosity and clarity, that John is not proposing 
(below) to perform a complete parsimony analysis of all primates, but to 
check in all primates except 5 species for absence of 'derived' (i.e. 
original) states present in (human, orang), which is consistent with the 
diagnostic of an implicit 'clique + homoplasy-free' analysis mentioned 
above 

I'm not trying to promote John Grehan's quite peculiar method, these 
precisions have no other intention than possibly helping to avoid going 
round through all this discussion again 

Pierre


John Grehan wrote:
> Here's where I will probably show even more ignorance than usual. If one only has to align five taxa (orang, chimp, bonobo, gorilla, human) is suggested below what is the point if there is no outgroup for analysis? I have seen quite a few analyses that treat the orangutan as the outgroup which means, of course, that the analysis contributes nothing to the orangutan question. In other analyses only one or two species of gibbon or monkey are used. If that were done in morphology one would be laughed out of the room (I take that back, evidently that is no longer the case). 
>
> One of the robust aspects of the orangutan evidence is that if one uses an outgroup to refer to ALL species of monkey and all the lesser apes, any demonstration of absence of the derived state in all these representatives is pretty good corroboration of the derived state for great apes and humans. It will be interesting if the same can be said of sequences where complete outgroup comparison is made, and not just for a few species.
>
>   
> This sort of discussion periodically flares on taxacom (and often with the same participants). Actually looking at the maligned molecular data might be a useful approach to the issue. I've included a small fasta file of hominidae sequences for cytochrome oxidase II.  
> I downloaded it from phylota ( http://loco.biosci.arizona.edu/cgi-bin/
> sql_getcluster.cgi?ti=9604&cl=61&ntype=1&db=GB159 ), added taxon names to the annotations, and trimmed off the regions of DNA present in only a subset of the taxa (and if this is a controversial step, feel free to get the original data from the above URL and play with it directly). One can load this file in a favorite sequence alignment program that allows manual alignment (MacClade and Mesquite are popular), or even just print out the sequences and truly manually align them, and "go and see that" the reasonable alignment is one with no indels, even though the sequence data are rather divergent (up to 16% pairwise differences) and thus potentially difficult to align. For a mitochondrial protein-coding gene, the lack of indels and thus trivial alignment is what you'd expect. One can also try various "theoretical mathematical models" (Clustal, Muscle, etc.) using reasonable parameter values (such as the program default
> values) and verify that these algorithmic approaches return the same results as the gold standard eyeball analysis. Of course, one can set bizarre parameter values to get wacky results, just as one could assert that ears in elephants are homologous with fins in sharks, but barring this, in many cases molecular homology statements will be reasonable and uncontroversial.
>
> Perhaps the morphological characters are giving the correct answer while the molecular data are consistently misleading about hominidae relationships, but if so, the explanation has to come from somewhere other than some innate arbitrariness of alignment. Sometimes alignment IS hard and leads to ambiguous or even erroneous results, but often, especially with exons of protein-coding genes, it's just not that bad. See for yourself.
>
> Best regards,
> Brian O'Meara 
>  >'gi51104787_ti9601_Pongo_pygmaeus_abelii'
> ACTCACCAACACCAGCATCTCAGACGCCCAAGAGATAGAGACTATTTGAACTATCCTACCGGCCATCATCCT
> AATTCTAATCGCCCTCCCATCCCTACGCATCCTCTACTTAACAGACGAGATCAACGACCCTTCCTTCACCAT
> CAAATCAATCGGTCATCAATGATACTGAACCTACGAGTACACTGACTACGGTGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTCGACGTCGACAACCGAGTAGTCCTCCC
> AGTCGAAGCTCCCGTTCGCATAATAATCACATCCCAAGACGTCTTACACTCATGAACTGTACCCTCACTAGG
> CCTGAAAACGGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACGCGACCAGGAGTGTACTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi51104761_ti91950_Pan_troglodytes_vellerosus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTCCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi1743318_ti9602_Pongo_pygmaeus_pygmaeus'
> ACTCACCAACACTAACATCTCAGATGCCCAAGAGATAGAAACTATTTGAACTATCCTACCAGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAAATCAACGACCCTTCCTTCACCAT
> TAAATCAATCGGCCATCAATGATACTGAACCTACGAGTATACTGACTATGGCGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTAGACGTCGACAATCGAGTAGTCCTCCC
> AGTCGAAGCCCCCGTTCGCATAATAATCACATCCCAGGACGTCTTGCACTCATGAACCGTCCCCTCACTAGG
> CCTGAAAACAGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACACGACCAGGAGTATATTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi51104763_ti37010_Pan_troglodytes_schweinfurthii'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAGACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTTCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGGGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi1743320_ti9602_Pongo_pygmaeus_pygmaeus'
> ACTCACCAACACTAACATCTCAGATGCCCAAGAGATAGAAACTATTTGAACTATCCTACCAGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAAATCAACGACCCTTCCTTCACCAT
> TAAATCAATCGGCCATCAATGATACTGAACCTACGAATATACTGACTATGGCGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTAGACGTCGACAATCGAGTAGTCCTCCC
> AGTCGAAGCCCCCGTTCGCATAATAATCACATCCCAGGACGTCTTGCACTCATGAACCGTCCCCTCACTAGG
> CCTGAAAACAGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACACGACCAGGAGTATATTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi51104791_ti9601_Pongo_pygmaeus_abelii'
> ACTCACCAACACCAGCATCTCAGACGCCCAAGAAATGGAGACTATTTGAACTATCCTACCGGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAGATCAACAACCCTTCCTTCACCAT
> CAAATCAATCGGTCATCAATGATACTGAACCTACGAGTACACTGACTACGGTGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTCGACGTCGACAACCGAGTAGTCCTCCC
> AGTCGAAGCTCCCGTTCGCATAATAATCACATCCCAAGACGTCTTACACTCATGAACTGTACCCTCACTAGG
> CCTAAAAACGGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACGCGACCAGGAGTGTACTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAATTAATCCCCC
>  >'gi51104789_ti9601_Pongo_pygmaeus_abelii'
> ACTCACCAACACCAGCATCTCAGACGCCCAAGAGATAGAGACTATTTGAACTATCCTACCGGCCATCATCCT
> AATTCTAATCGCCCTCCCATCCCTACGCATCCTCTACTTAACAGACGAGATCAACGACCCTTCCTTCACCAT
> CAAATCAATCGGTCATCAATGATACTGAACCTACGAGTACACTGACTACGGTGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTCGACGTCGACAACCGAGTAGTCCTCCC
> AGTCGAAGCTCCCGTTCGCATAATAATCACATCCCAAGACGTCTTACACTCATGAACTGTACCCTCACTAGG
> CCTGAAAACGGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACGCGACCAGGAGTGTACTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi549964_ti9600_Pongo_pygmaeus'
> ACTCACCAACACTAACATCTCAGATGCCCAAGAGATAGAAACTATTTGAACTACCCTACCAGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAAATCAACGACCCTTCCTTCACCAT
> TAAATCAATCGGCCATCAATGGTACTGAACCTACGAGTATACTGACTATGGCGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTAGACGTCGACAATCGAGTAGTCCTCCC
> AGTCGAAGCCCCCGTTCGCATAATAATCACATCCCAAGACGTCTTGCACTCATGAACCGTCCCCTCACTAGG
> CCTGAAAACAGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACACGACCAGGAGTATATTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi549966_ti9600_Pongo_pygmaeus'
> ACTCACCAACACCAGCATCTCAGACGCCCAAGAAATGGAGACTATTTGAACTATCCTACCGGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAGATCAACGACCCTTCCTTCACCAT
> CAAATCAATCGGTCATCAATGATACTGAACCTACGAGTACACTGACTACGGTGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTCGACGTCGACAACCGAGTAGTCCTCCC
> AGTCGAAGCTCCCGTTCGCATAATAATCACATCCCAAGACGTCTTACACTCATGAACTGTACCCTCACTAGG
> CCTAAAAACGGACGCAATCCCCGGACGCCTAAACCAAACCACATTGACTGCCACGCGACCAGGAGTGTACTA
> TGGCCAATGCTCAGAAATCTGTGGAGCCAACCACAGCTTTATGCCTATCGTCCTAGAATTAATCCCCC
>  >'gi51104783_ti9600_Pongo_pygmaeus'
> ACTCACCAACACTAACATCTCAGATGCCCAAGAGATAGAAACTATTTGAACTATCCTACCAGCCATCATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAAATCAACGACCCTTCCTTCACCAT
> TAAATCAATCGGCCATCAATGATACTGAACCTACGAGTATACTGACTATGGCGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTAGACGTCGACAATCGAGTAGTCCTCCC
> AGTCGAAGCCCCCGTTCGCATAATAATCACATCCCAGGACGTCTTGCACTCATGAACCGTCCCCTCACTAGG
> CCTGAAAACAGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACACGACCAGGAGTATATTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi51104785_ti9600_Pongo_pygmaeus'
> ACTCACCAACACTAACATCTCAGATGCCCAAGAGATAGAAACTATTTGAACTATCCTACCAGCCATTATCCT
> AATTCTAATCGCCCTCCCATCTCTACGCATCCTCTACTTAACAGACGAAATCAACGACCCTTCCTTCACCAT
> TAAATCAATCGGCCATCAATGATACTGAACCTACGAGTATACTGACTATGGCGGATTGATCTTCAACTCTTA
> CATGCTCCCACCACTATTCCTAGAACCAGGCGACCTTCGACTCCTAGACGTCGACAATCGAGTAGTCCTCCC
> AGTCGAAGCCCCCGTTCGCATAATAATCACATCCCAGGACGTCTTGCACTCATGAACCGTCCCCTCACTAGG
> CCTGAAAACAGACGCAATCCCCGGACGCCTAAACCAAACCACATTCACTGCCACACGACCAGGAGTATATTA
> TGGCCAATGCTCAGAAATCTGTGGAGCTAACCACAGCTTTATGCCTATCGTCCTAGAACTAATCCCCC
>  >'gi51104755_ti9593_Gorilla_gorilla'
> GCTAACTAACACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTGCCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi51104753_ti9593_Gorilla_gorilla'
> GCTAACTAACACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTGCCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi51104751_ti9593_Gorilla_gorilla'
> GCTAACTAACACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTGCCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi51104749_ti9593_Gorilla_gorilla'
> GCTAACTAACACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTGCCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi549956_ti9593_Gorilla_gorilla'
> GCTAACTAACACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTGCCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACACACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi549954_ti9593_Gorilla_gorilla'
> GCTAACTAGCACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTACCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi337100_ti9593_Gorilla_gorilla'
> GCTAACTAGCACCAACATCTCAGACGCCCAAGAAATAGAGACCATCTGAACCATCCTACCCGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCTCTACGAATCCTCTATATGACAGATGAAATCAATGACCCCTCCTTCACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCCTA
> TATACTCCCCCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGACGCCTGAACCAAACCACATTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTTCTAGAGCTAATCCCCC
>  >'gi549960_ti9593_Gorilla_gorilla'
> GCTAACTAGCACCAACATCTCAGACGCCCAAGAAATAGAGACCGTCTGAACCATCCTACCAGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCCCTACGAATCCTCTATATGACAGATGAAATCAACGACCCCTCCTTTACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGATCTTTAACTCTTA
> CATACTCCCTCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGGCGCCTGAACCAAACCACATTTACCGCCACACGACCAGGGCTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTCCTAGAGCTAATCCCCC
>  >'gi549958_ti9593_Gorilla_gorilla'
> GCTAACTAGCACCAACATCTCAGACGCCCAAGAAATAGAGACCGTCTGAACCATCCTACCAGCTATTATCTT
> AGTCCTGATCGCCCTCCCATCCCTACGAATCCTCTATATGACAGATGAAATCAACGATCCCTCCTTTACTAT
> CAAATCAATCGGTCACCAATGATACTGAACCTACGAATACACCGACTATGGTGGATTGGTCTTTAACTCTTA
> CATACTCCCTCCATTATTCCTAGAACCAGGTGACCTACGACTCCTTGACGTCGACAACCGAGTAGTCCTTCC
> AGTTGAAGCCCCCGTCCGTATAATAATTACATCCCAAGATGTCTTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATCCCCGGGCGCCTGAACCAAACCACATTTACCGCCACACGACCAGGGGTATACTA
> CGGCCAGTGCTCAGAAATCTGTGGAGCCAACCACAGTTTTATGCCCATTGTCCTAGAACTAATCCCCC
>  >'gi530080_ti9597_Pan_paniscus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTTCCATCTCTACGTATCCTTTATATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGACTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGCGACCTACGACTCCTTGACGTTGATAACCGGGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAGTTAATCCCCC
>  >'gi51104757_ti9597_Pan_paniscus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTTCCATCTCTACGTATCCTTTATATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGACTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGCGACCTACGACTCCTTGACGTTGATAACCGGGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTCCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAGTTAATCCCCC
>  >'gi549962_ti9597_Pan_paniscus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTTCCATCTCTACGTATCCTTTATATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGACTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGCGACCTACGACTCCTTGACGTTGATAACCGGGTGGTACTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTCCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAGTTAATCCCCC
>  >'gi530078_ti9597_Pan_paniscus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTTCCATCTCTACGTATCCTTTATATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGACTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGCGACCTACGACTCCTTGACGTTGATAACCGGGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTATCCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> TGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAGTTAATCCCCC
>  >'gi51104759_ti37011_Pan_troglodytes_troglodytes'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAGACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGGGCTGTACCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAGTTAATCCCTC
>  >'gi51104765_ti37012_Pan_troglodytes_verus'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi530082_ti9598_Pan_troglodytes'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAGACCGTCTGAACTATCCTACCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTTCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGGGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi549968_ti9598_Pan_troglodytes'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi549970_ti9598_Pan_troglodytes'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTCCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGAGTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> TCTAAAAACAGACGCAATTCCCGGACGCCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi336513_ti9598_Pan_troglodytes'
> ACTAACTAATACTAGTATTTCAGACGCCCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTTATTGCCCTACCATCCCTGCGTATCCTTTACATAACAGACGAGGTCAACGACCCCTCCTTTACTAT
> TAAATCAATCGGCCATCAATGATATTGAACCTACGAATACACCGACTACGGCGGGCTAATCTTCAACTCCTA
> CATACTCCCCCCATTATTTCTAGAACCAGGTGATCTACGACTCCTTGACGTTGATAACCGACTGGTCCTCCC
> AGTTGAAGCCCCCGTTCGTATAATAATTACATCACAAGATGTTCTACACTCATGAGCTGTTCCCACATTAGG
> CCTAAAAACAGACGCAATTCCCGGACGTCTAAACCAAACCACTTTCACCGCCACACGACCAGGAGTATACTA
> CGGCCAATGCTCAGAAATCTGTGGAGCAAACCACAGTTTTATACCCATCGTCCTAGAATTAATCCCTC
>  >'gi530076_ti9606_Homo_sapiens'
> ACTAACTAATACTAACATCTCAGACGCTCAGGAAATAGAAACCGTCTGAACTATCCTGCCCGCCATCATCCT
> AGTCCTCATCGCCCTCCCATCCCTACGCATCCTTTACATAACAGACGAGGTCAACGATCCCTCCCTTACCAT
> CAAATCAATTGGCCACCAATGGTACTGAACCTACGAGTACACCGACTACGGCGGACTAATCTTCAACTCCTA
> CATACTTCCCCCATTATTCCTAGAACCAGGCGACCTGCGACTCCTTGACGTTGACAATCGAGTAGTACTCCC
> GATTGAAGCCCCCATTCGTATAATAATTACATCACAAGACGTCTTGCACTCATGAGCTGTCCCCACATTAGG
> CTTAAAAACAGATGCAATTCCAGGACGTCTAAACCAAACCACTTTCACCGCTACACGACCAGGGGTATACTA
> CGGTCAATGCTCTGAAATCTGTGGAGCAAACCACAGTTTCATGCCCATCGTCCTAGAATTAATTCCCC
>
>
>
>
>   
Pierre Deleporte
Université de Rennes 1
CNRS UMR 6552 
Station Biologique de Paimpont
F-35380 Paimpont   FRANCE
Téléphone : 02 99 61 81 63
Télécopie : 02 99 61 81 88

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