[Bioperl-l] Alignment works with codeml (not loading in bioperl)

Jason Stajich jason at bioperl.org
Thu Jul 26 20:12:03 EDT 2007


You can try and pass in -interleaved => 0 as another option when you
init your AlignIO object.

On 7/26/07, Munirul Islam <ba6450 at wayne.edu> wrote:
> Hello Everyone:
>
> I have an alignment ('seq.txt').  It runs fine when I directly run codeml.  But when I try to load the alignment in bioperl, I get an error saying that the sequence is not interleaved.
>
> my $alignio = Bio::AlignIO->new(-format => 'phylip',
>                                 -file   => 'seq.txt');
>
> I guess its not in valid phylip format.
>
> I tried to change 'seq.txt' to sequential format.  Still that didn't work.
>
> Any suggestions on how to load 'seq.txt' in bioperl?
>
> Thanks,
>
> Munir
> PhD Student
> Computer Science
> Wayne State University
>
>      11     2202
>
> human
> GCT GCC CCC AGA CAG CGC --- CAG TCC --- ACC CTT --- GTG CTC TTC CCT GGA GAC CTG
> AGA ACC NNN AAT CTC ACC GAC AGG CAG CTG GCA GAG GAA TAC CTG TAC CGC TAT GGT TAC
> ACT CGG GTG GCA GAG ATG CGT --- GGA GAG TCG AAA --- TCT CTG GGG --- CCT GCG CTG
> CTG CTT CTC CAG AAG CAA CTG TCC CTG CCC GAG ACC GGT GAG CTG GAT AGC GCC ACG CTG
> AAG GCC ATG CGA ACC CCA CGG TGC GGG GTC CCA GAC CTG GGC AGA TTC CAA ACC TTT GAG
> GGC GAC CTC AAG TGG CAC CAC CAC AAC ATC ACC TAT TGG ATC CAA AAC TAC TCG GAA GAC
> TTG CCG CGG GCG GTG ATT GAC GAC GCC TTT GCC CGC GCC TTC GCA CTG TGG AGC GCG GTG
> ACG CCG CTC ACC TTC ACT CGC GTG TAC AGC CGG GAC GCA GAC ATC GTC ATC CAG TTT GGT
> GTC GCG GAG CAC GGA GAC GGG TAT CCC TTC GAC GGG AAG GAC GGG CTC CTG GCA CAC GCC
> TTT CCT CCT GGC CCC GGC ATT CAG GGA GAC GCC CAT TTC GAC GAT GAC GAG TTG TGG TCC
> CTG GGC AAG GGC GTC GTG GTT CCA ACT CGG TTT GGA AAC GCA GAT GGC GCG GCC TGC CAC
> TTC CCC TTC ATC TTC GAG GGC CGC TCC TAC TCT GCC TGC ACC ACC GAC GGT CGC TCC GAC
> GGC TTG CCC TGG TGC AGT ACC ACG GCC AAC TAC GAC ACC GAC GAC CGG TTT GGC TTC TGC
> CCC AGC GAG AGA CTC TAC ACC CAG GAC GGC AAT GCT GAT GGG AAA CCC TGC CAG TTT CCA
> TTC ATC TTC CAA GGC CAA TCC TAC TCC GCC TGC ACC ACG GAC GGT CGC TCC GAC GGC TAC
> CGC TGG TGC GCC ACC ACC GCC AAC TAC GAC CGG GAC AAG CTC TTC GGC TTC TGC CCG ACC
> CGA GCT GAC TCG ACG GTG ATG GGG GGC AAC TCG GCG GGG GAG CTG TGC GTC TTC CCC TTC
> ACT TTC CTG GGT AAG GAG TAC TCG ACC TGT ACC AGC GAG GGC CGC GGA GAT GGG CGC CTC
> TGG TGC GCT ACC ACC TCG AAC TTT GAC AGC GAC AAG AAG TGG GGC TTC TGC CCG GAC CAA
> GGA TAC AGT TTG TTC CTC GTG GCG GCG CAT GAG TTC GGC CAC GCG CTG GGC TTA GAT CAT
> TCC TCA GTG CCG GAG GCG CTC ATG TAC CCT ATG TAC CGC TTC ACT GAG GGG CCC CCC TTG
> CAT AAG GAC GAC GTG AAT GGC ATC CGG CAC CTC TAT GGT CCT CGC CCT GAA CCT GAG CCA
> CGG CCT CCA ACC ACC ACC ACN NNN NNN NNN NNN NNA --- CCG CAG CCC ACG GCT CCC CCG
> ACG GTC TGC CCC ACC GGA CCC CCC ACT GTC CAC CCC TCA GAG CGC CCC ACA GCT GGC CCC
> ACA GGT CCC CCC TCA GCT GGC CCC ACA GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCC --- CCC ACT GCT GGC CCT TCT ACG GCC ACT ACT --- GTG
> CCT TTG AGT CCG GTG GAC GAT GCC TGC AAC GTG AAC ATC TTC GAC GCC ATC GCG GAG ATT
> GGG AAC CAG CTG TAT TTG TTC AAG GAT GGG AAG TAC TGG --- --- CGA TTC TCT GAG ---
> --- GGC AGG GGG AGC CGG CCG CAG GGC CCC TTC CTT ATC GCC GAC AAG TGG CCC GCG CTG
> CCC CGC AAG CTG GAC TCG GTC TTT GAG GAG CGG CTC TCC AAG AAG CTT TTC TTC TTC TCT
> GGG CGC CAG GTG TGG GTG TAC ACA GGC GCG TCG GTG CTG GGC CCG AGG CGT CTG GAC AAG
> CTG GGC CTG GGA GCC GAC GTG GCC CAG GTG ACC GGG GCC CTC --- CGG AGT GGC AGG GGG
> AAG ATG CTG CTG TTC AGC GGG CGG CGC CTC TGG AGG TTC GAC GTG AAG GCG CAG ATG GTG
> GAT CCC CGG AGC GCC AGC GAG --- --- GTG GAC CGG ATG TTC CCC GGG GTG CCT TTG GAC
> ACG CAC GAC GTC TTC CAG TAC CGA --- GAG AAA GCC TAT --- TTC TGC CAG GAC CGC TTC
> TAC TGG CGC GTG AGT TCC CGG AGT NNN NNN NNN NNN NNN NNN NNN GAG TTG AAC CAG GTG
> GAC CAA GTG GGC TAC GTG ACC TAT GAC ATC CTG CAG TGC CCT
> chimp
> GCT GCC CCC AGA CAG CGC --- CAG TCC --- ACC CTT --- GTG CTC TTC CCT GGA GAC CTG
> AGA ACC NNN AAT CTC ACC GAC AGG CAG CTG GCA GAG GAA TAC CTG TAC CGC TAT GGT TAC
> ACT CGG GTG GCA GAG ATG CGT --- GGA GAG TCG AAA --- TCT CTG GGG --- CCT GCG CTG
> CTG CTT CTC CAG AAG CAA CTG TCC CTG CCC GAG ACC GGT GAG CTG GAC AGC GCC ACG CTG
> AAG GCC ATG CGA ACC CCA CGG TGC GGG GTC CCA GAC CTG GGC AAA TTC CAA ACC TTT GAG
> GGC GAC CTC AAG TGG CAC CAC CAC AAC ATC ACC TAT TGG ATC CAA AAC TAC TCG GAA GAC
> TTG CCG CGG GCG GTG ATT GAC GAC GCC TTT GCC CGC GCC TTC GCA CTG TGG AGC GCG GTG
> ACG CCG CTC ACC TTC ACT CGC GTG TAC AGC CGG GAC GCA GAC ATC GTC ATC CAG TTT GGT
> GTC GCG GAG CAC GGA GAC GGG TAT CCC TTC GAC GGG AAG GAC GGG CTC CTG GCA CAC GCC
> TTT CCT CCT GGC CCC GGC ATT CAG GGA GAC GCC CAT TTC GAC GAT GAC GAG TTG TGG TCC
> CTG GGC AAG GGC GTC GTG GTT CCA ACT CGG TTT GGA AAC GCA GAT GGC GCG GCC TGC CAC
> TTC CCC TTC ATC TTC GAG GGC CGC TCC TAC TCT GCC TGC ACC ACC GAC GGT CGC TCC GAC
> GGC TTG CCC TGG TGC AGT ACC ACG GCC AAC TAC GAC ACC GAC GAC CGG TTT GGC TTC TGC
> CCC AGC GAG AGA CTT TAC ACC CAG GAT GGC AAT GCT GAT GGG AAA CCC TGC CAG TTT CCA
> TTC ATC TTC CAA GGC CAA TCC TAC TCC GCC TGC ACC ACG GAC GGT CGC TCC GAC GGC TAC
> CGC TGG TGC GCC ACC ACC GCC AAC TAC GAC CGG GAC AAG CTC TTC GGC TTC TGC CCG ACC
> CGA GCT GAC TCG ACG GTG ATG GGG GGC AAC TCG GCG GGG GAG CTG TGC GTC TTC CCC TTC
> ACT TTC CTG GGT AAG GAG TAC TCG ACC TGT ACC AGC GAG GGC CGC GGA GAT GGG CGC CTC
> TGG TGC GCT ACC ACC TCG AAC TTT GAC AGC GAC AAG AAG TGG GGC TTC TGC CCG GAC CAA
> GGA TAC AGT TTG TTC CTC GTG GCG GCG CAT GAG TTC GGC CAC GCG CTG GGC TTA GAT CAT
> TCC TCA GTG CCG GAG GCG CTC ATG TAC CCT ATG TAC CGC TTC ACT GAG GGG CCC CCC TTG
> CAT AAG GAC GAC GTG AAT GGC ATC CGG CAC CTC TAT GGT CCT CGC CCT GAA CCT GAG CCA
> CGG CCT CCA ACC ACC ACC ACN NNN NNN NNN NNN NNA --- CCG CAG CCC ACG GCT CCC CCG
> ACG GTC TGC CCC ACC GGA CCC CCC ACT GTC CGC CCC TCA GAG CGC CCC ACA GCT GGC CCC
> ACA GGT CCC CCC NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN --- NNN ACT GCT GGC CCT TCT ACG GCC ACT ACT --- GTG
> CCT TTG AGT CCG GTG GAC GAT GCC TGC AAC GTG AAC ATC TTC GAC GCC ATC GCG GAG ATT
> GGG AAC CAG CTG TAT TTG TTC AAG GAT GGG AAG TAC TGG --- --- CGA TTC TCT GAG ---
> --- GGC AGG GGG AGC CGG CCG CAG GGC CCC TTC CTT ATC GCC GAC AAG TGG CCC GCG CTG
> CCC CGC AAG CTG GAC TCG GTC TTT GAG GAG CCG CTC TCC AAG AAG CTT TTC TTC TTC TCT
> GGG CGC CAG GTG TGG GTG TAC ACA GGC GCG TCG GTG CTG GGC CCG AGG CGT TTG GAC AAG
> CTG GGC CTG GGC GCC GAC GTG GCC CAG GTG ACC GGG GCC CTC --- CGG AGT GGC AGG GGG
> AAG ATG CTG CTG TTC AGC GGG CGG CGC CTC TGG AGG TTC GAC GTG AAG GCG CAG ATG GTG
> GAT CCC CGG AGC GCC AGC GAG --- --- GTG GAC CGG ATG TTC CCC GGG GTG CCT TTG GAC
> ACG CAC GAC GTC TTC CAG TAC CGA --- GAG AAA GCC TAT --- TTC TGC CAG GAC CGC TTC
> TAC TGG CGC GTG AGT TCC CGG AAT NNN NNN NNN NNN NNN NNN NNN GAG TTG AAC CAG GTG
> GAC CAA GTG GGC TAC GTG ACC TAT GAC ATC CTG CAG TGC CCT
> macaca
> GCT GCC CCC AGA CAG CGC --- CAG TCC --- ACC CTT --- GTG CTC TTC CCT GGA GAC CTG
> AAA ACC NNN AAT CTC ACT GAC AGG CAG CTG GCA GAG GAC TAC CTG TAC CGC TAT GGT TAC
> ACT CGG GTG GCA GAG ATG CAT --- GGA GAC TCG AAA --- TCT CTG GGG --- CCT GCG CTG
> CTG CTT CTC CAG AAG CAA CTG TCC CTG CCC CAG ACC GGT GAG CTA GAC AGC GCC ACG CTG
> AAG GCC ATG CGA ACC CCA CGG TGC GGG GTC CCA GAC CTG GGC AGA TTC CAA ACC TTT GAG
> GGC GAC CTC AAG TGG CAC CAC CAC AAC ATC ACC TAT TGG ATC CAA AAC TAC TCG GAA GAC
> TTG CCG CGG GCG GTG ATT GAA GAC GCC TTT GCC CGC GCC TTT GCG CTG TGG AGC GCG GTG
> ACG CCG CTC ACC TTC ACT CGC GTG TAC AGC CGG GAC GCA GAC ATT GTC ATC CAG TTT GGT
> GTC GCG GAG CAC GGA GAC GGG TAT CCC TTC GAC GGG AAG GAC GGG CTC CTG GCA CAC GCC
> TTT CCT CCT GGG CCC GGC ATT CAG GGA GAC GCC CAT TTC GAC GAT GAC GAG TTG TGG TCG
> CTG GGC AAG GGC GTC GTG GTT CCA ACT AAG TTT GGA AAC GCA GAT GGC GCG GCC TGC CAC
> TTC CCC TTC ACC TTC GAG GGC CGC TCC TAC TCT GCC TGC ACC ACA GAC GGT CGC TCC GAC
> GGC GTG CCC TGG TGC AGT ACC ACA GCC AAC TAC GAC ACT GAC CGC CGG TTT GGC TTC TGT
> CCC AGC GAG AGA CTC TAC ACC CAG GAC GGC AAT GCT GAC GGG AAA CCC TGC CAG TTT CCA
> TTC ATC TTC CAA GGC CAA TCC TAC TCC GCC TGC ACC ACG GAC GGT CGC TCC GAC GGC TAC
> CGC TGG TGC GCC ACC ACC GCC AAC TAC GAC CAG GAC AAG CTC TAC GGC TTC TGC CCG ACC
> CGA GCC GAC TCG ACC GTG ATC GGG GGC AAC TCG GCG GGG GAG CTG TGC GTT TTC CCC TTC
> ACC TTC CTG GGT AAG GAG TAC TCG ACC TGT ACC AGC GAG GGC CGC GGA GAT GGG CGC CTC
> TGG TGC GCT ACC ACC TCG AAC TTT GAC AGA GAC AAG AAG TGG GGC TTC TGC CCG GAC CAA
> GGA TAC AGT CTG TTC CTC GTG GCA GCT CAC GAA TTC GGC CAC GCG CTG GGC TTA GAT CAT
> ACC TCA GTG CCG GAG GCG CTC ATG TAC CCT ATG TAC CGA TTC ACT GAG GAG CCC CCC TTG
> CAT AAG GAC GAC GTG AAT GGC ATC CAG TAT CTC TAT GGT TCT CGC CCT GAA CCT GAG CCA
> CGG CCT CCA ACC ACC ACC ACN NNN NNN NNN NNN NNA --- CCG CAG CCC ACG GCT CCC CCG
> ACG GTC TGC CCC ACT GGA CCC CCC ACT GTC CGC CCC TCA GAC CGC CCC ACA GCC GGC CCC
> ACA GGT CCC CCC TCA GCT GGC CCC ACA GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCC --- CCC ACT GCT GGC CCT TCT ACG ACC ACT ACT --- GTG
> CCT TTG AAT CCG GTG GAC GAT GCC TGC AAC GTG AAC ATC TTC GAC GCC ATC ACG GAG ATC
> GGG AAC CAG CTG TAT CTG TTC AAG GAT GGG AGG TAC TGG --- --- CGA TTC TCC GAG ---
> --- CGC AGG GGG AGC CGG CTG CAG GGC CCC TTC CTT ATC GCC GAC ACG TGG CCC GCG TTG
> CCC CGC AAG CTG GAC TCG GCC TTT GAG GAG CCG CTC TCC AAG AAG CTT TTC TTC TTC TCT
> GGG CGC CAG GTG TGG GTG TAC ACA GGC GCG TCG GTG CTG GGC CCG AGG CGT CTA GAC AAG
> CTG GGC CTG GGC GCC GAC GTG GCC CAG GTG ACC GGG GCC CTC --- CGG CGT GGC GCG GGG
> AAG ATG CTG CTA TTC AGC GGG CGG CGC TTC TGG AGG TTC GAC GTG AAG GCG CAG ATG GTG
> GAT CCC CGG AGC GCC AGC GAG --- --- GTA GAC CGG ATG TTC CCC GGG GTG CCT TTG GAC
> ACG CAC GAC GTC TTC CAG TAC CAA --- GAG AAA GCC TAT --- TTC TGC CAG GAC CGC TTC
> TAC TGG CGC GTG AGT TTC CAG AGT NNN NNN NNN NNN NNN NNN NNN GGG GTG AAC CAG GTG
> GAC CAA GTG GGC TAC GTG ACC TAT GAC ATC CTG CAG TGC CCT
> mouse
> GCT GCC CCT TAC CAG CGC --- CAG CCG --- ACT TTT --- GTG GTC TTC CCC AAA GAC CTG
> AAA ACC TCC AAC CTC ACG GAC ACC CAG CTG GCA GAG GCA TAC TTG TAC CGC TAT GGT TAC
> ACC CGG GCC GCC CAG ATG ATG --- GGA GAG AAG CAG --- TCT CTA CGG --- CCG GCT TTG
> CTG ATG CTT CAG AAG CAG CTC TCC CTG CCC CAG ACT GGT GAG CTG GAC AGC CAG ACA CTA
> AAG GCC ATT CGA ACA CCA CGC TGT GGT GTC CCA GAC GTG GGT CGA TTC CAA ACC TTC AAA
> GGC NNN CTC AAG TGG GAC CAT CAT AAC ATC ACA TAC TGG ATC CAA AAC TAC TCT GAA GAC
> TTG CCG CGA GAC ATG ATC GAT GAC GCC TTC GCG CGC GCC TTC GCG GTG TGG GGC GAG GTG
> GCA CCC CTC ACC TTC ACC CGC GTG TAC GGA CCC GAA GCG GAC ATT GTC ATC CAG TTT GGT
> GTC GCG GAG CAC GGA GAC GGG TAT CCC TTC GAC GGC AAG GAC GGC CTT CTG GCA CAC GCC
> TTT CCC CCT GGC GCC GGC GTT CAG GGA GAT GCC CAT TTC GAC GAC GAC GAG TTG TGG TCG
> CTG GGC AAA GGC GTC GTG ATC CCC ACT TAC TAT GGA AAC TCA AAT GGT GCC CCA TGT CAC
> TTT CCC TTC ACC TTC GAG GGA CGC TCC TAT TCG GCC TGC ACC ACA GAC GGC CGC AAC GAC
> GGC ACG CCT TGG TGT AGC ACA ACA GCT GAC TAC GAT AAG GAC GGC AAA TTT GGT TTC TGC
> CCT AGT GAG AGA CTC TAC ACG GAG CAC GGC AAC GGA GAA GGC AAA CCC TGT GTG TTC CCG
> TTC ATC TTT GAG GGC CGC TCC TAC TCT GCC TGC ACC ACT AAA GGC CGC TCG GAT GGT TAC
> CGC TGG TGC GCC ACC ACA GCC AAC TAT GAC CAG GAT AAA CTG TAT GGC TTC TGC CCT ACC
> CGA GTG GAC GCG ACC GTA GTT GGG GGC AAC TCG GCA GGA GAG CTG TGC GTC TTC CCC TTC
> GTC TTC CTG GGC AAG CAG TAC TCT TCC TGT ACC AGC GAC GGC CGC AGG GAT GGG CGC CTC
> TGG TGT GCG ACC ACA TCG AAC TTC GAC ACT GAC AAG AAG TGG GGT TTC TGT CCA GAC CAA
> GGG TAC AGC CTG TTC CTG GTG GCA GCG CAC GAG TTC GGC CAT GCA CTG GGC TTA GAT CAT
> TCC AGC GTG CCG GAA GCG CTC ATG TAC CCG CTG TAT AGC TAC CTC GAG GGC TTC CCT CTG
> AAT AAA GAC GAC ATA GAC GGC ATC CAG TAT CTG TAT GGT CGT GGC TCT AAG CCT GAC CCA
> AGG CCT CCA GCC ACC ACC ACA ACT NNN NNN NNN GAA --- CCA CAG CCG ACA GCA CCT CCC
> ACT ATG TGT CCC ACT ATA CCT CCC ACG GCC TAT CCC ACA GTG GGC CCC ACG GTT GGC CCT
> ACA GGC GCC CCC TCA CCT GGC CCC ACA AGC AGC CCG TCA CCT GGC CCT ACA GGC GCC CCC
> TCA CCT GGC CCT ACA GCG CCC --- CCT ACT GCG GGC TCT TCT GAG GCC TCT ACA --- GAG
> TCT TTG AGT CCG GCA GAC AAT CCT TGC AAT GTG GAT GTT TTT GAT GCT ATT GCT GAG ATC
> CAG GGC GCT CTG CAT TTC TTC AAG GAC GGT TGG TAC TGG --- --- AAG TTC CTG AAT ---
> --- CAT AGA GGA AGC CCA TTA CAG GGC CCC TTC CTT ACT GCC CGC ACG TGG CCA GCC CTG
> CCT GCA ACG CTG GAC TCC GCC TTT GAG GAT CCG CAG ACC AAG AGG GTT TTC TTC TTC TCT
> GGA CGT CAA ATG TGG GTG TAC ACA GGC AAG ACC GTG CTG GGC CCC AGG AGT CTG GAT AAG
> TTG GGT CTA GGC CCA GAG GTA ACC CAC GTC AGC GGG CTT CTC CCG CGT CGT CTC --- GGG
> AAG GCT CTG CTG TTC AGC AAG GGG CGT GTC TGG AGA TTC GAC TTG AAG TCT CAG AAG GTG
> GAT CCC CAG AGC GTC ATT CGC --- --- GTG GAT AAG GAG TTC TCT GGT GTG CCC TGG AAC
> TCA CAC GAC ATC TTC CAG TAC CAA --- GAC AAA GCC TAT --- TTC TGC CAT GGC AAA TTC
> TTC TGG CGT GTG AGT TTC CAA AAT GAG GTG AAC AAG GTG GAC CAT GAG GTG AAC CAG GTG
> GAC GAC GTG GGC TAC GTG ACC TAC GAC CTC CTG CAG TGC CCT
> rat
> GCT GCC CCT CAC CAG CGC --- CAG CCG --- ACT TAT --- GTG GTC TTC CCC CGA GAC CTG
> AAA ACC TCC AAC CTC ACG GAC ACA CAG CTG GCA GAG GAT TAC CTG TAC CGC TAT GGT TAC
> ACT CGG GCA GCC CAG ATG ATG --- GGA GAG AAG CAG --- TCC CTG CGG --- CCC GCT TTG
> CTG ATG CTT CAG AAG CAG CTG TCC CTG CCC CAG ACT GGT GAG CTG GAC AGC GAG ACA CTA
> AAG GCC ATT CGT TCA CCG CGC TGT GGT GTC CCA GAC GTG GGC AAA TTC CAA ACC TTC GAA
> GGC GAC CTC AAG TGG CAC CAT CAT AAC ATC ACC TAT TGG ATC CAA AGC TAC ACC GAA GAC
> TTG CCG CGA GAC GTG ATC GAT GAC TCC TTC GCG CGC GCC TTC GCG GTG TGG AGC GCG GTG
> ACA CCG CTC ACC TTC ACC CGC GTG TAC GGG CTC GAA GCA GAC ATT GTC ATC CAG TTT GGT
> GTC GCG GAG CAC GGG GAC GGG TAT CCC TTC GAC GGC AAG GAT GGT CTA CTG GCA CAC GCC
> TTT CCC CCT GGC CCC GGC ATT CAG GGA GAT GCC CAC TTC GAC GAC GAC GAG TTG TGG TCG
> CTG GGC AAA GGC GCC GTG GTC CCC ACT TAC TTT GGA AAC GCA AAT GGT GCC CCA TGT CAC
> TTT CCC TTC ACC TTC GAG GGA CGC TCC TAT TTG TCC TGC ACC ACG GAT GGC CGC AAC GAC
> GGC AAG CCT TGG TGT GGC ACG ACA GCT GAC TAC GAC ACA GAC AGA AAA TAT GGT TTC TGC
> CCC AGT GAG AAT CTC TAC ACG GAG CAT GGC AAC GGA GAC GGC AAA CCC TGC GTA TTT CCA
> TTC ATC TTC GAG GGC CAC TCC TAC TCT GCC TGC ACC ACT AAA GGT CGC TCG GAT GGT TAT
> CGC TGG TGC GCC ACC ACC GCC AAC TAT GAC CAG GAT AAG CTG TAT GGC TTC TGT CCT ACT
> CGA GCC GAC GTC ACT GTA ACT GGG GGC AAC TCG GCA GGA GAG ATG TGC GTC TTC CCC TTC
> GTC TTC CTG GGC AAG CAG TAC TCT ACC TGT ACC GGC GAG GGC CGC AGT GAT GGG CGC CTC
> TGG TGC GCG ACG ACG TCG AAC TTC GAC GCT GAC AAG AAG TGG GGT TTC TGT CCA GAC CAA
> GGG TAC AGC CTG TTT CTG GTG GCA GCG CAC GAG TTC GGC CAT GCG CTG GGC TTA GAT CAT
> TCT TCA GTG CCG GAA GCG CTC ATG TAC CCC ATG TAT CAC TAC CAC GAG GAC TCC CCT CTG
> CAT GAA GAC GAC ATA AAA GGC ATC CAG CAT CTG TAT GGT CGT GGC TCT AAA CCT GAC CCA
> AGG CCT CCA GCC ACC ACC GCA GCT NNN NNN NNN GAA --- CCA CAG CCG ACA GCT CCT CCC
> ACT ATG TGT CCC ACT GCA CCT CCC ATG GCC TAT CCC ACA GGG GGC CCC ACA GTC GCC CCT
> ACA GGC GCC CCC TCA CCT GGC CCC ACA GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCC --- CCT ACT GCT GGT CCT TCT GAG GCC CCT ACA --- GAG
> TCT TCG ACT CCA GTA GAC AAT CCT TGC AAT GTG GAT GTT TTT GAT GCC ATT GCT GAT ATC
> CAG GGC GCT CTG CAT TTC TTC AAG GAC GGT CGG TAT TGG --- --- AAG TTC TCG AAT ---
> --- CAC GGA GGA AGC CAA TTG CAG GGC CCC TTT CTT ATT GCC CGC ACG TGG CCA GCT TTG
> CCT GCA AAG TTG AAC TCA GCC TTT GAG GAT CCG CAG TCC AAG AAG ATT TTC TTC TTC TCT
> GGG CGC AAA ATG TGG GTG TAC ACA GGC CAG ACG GTG CTG GGC CCC AGG AGT CTG GAT AAG
> TTG GGG CTA GGC TCA GAG GTA ACC CTG GTC ACC GGA CTT CTC CCG CGT CGT GGA --- GGG
> AAG GCT CTG CTG ATC AGC CGG GAA CGT ATC TGG AAA TTC GAC TTG AAG TCT CAG AAG GTG
> GAT CCC CAG AGC GTT ACT CGC --- --- TTG GAT AAC GAG TTC TCT GGC GTG CCC TGG AAC
> TCA CAC AAC GTC TTT CAC TAC CAA --- GAC AAG GCC TAT --- TTC TGC CAT GAC AAA TAC
> TTC TGG CGT GTG AGT TTC CAC AAC NNN NNN NNN NNN NNN NNN NNN CGG GTG AAC CAG GTG
> GAC CAC GTG GCC TAC GTG ACC TAT GAC CTC CTG CAG TGC CCT
> rabbit
> GCC GCC CCT CGC CGC CGC --- CAG CCC --- ACC TTG --- GTG GTC TTC CCA GGA GAG CTG
> AGA ACC NNN AGG CTC ACC GAC AGG CAG CTG GCA GAG GAG TAC CTG TTC CGC TAT GGT TAC
> ACC CGC GTA GCC AGC ATG CAC --- GGA GAC AGC CAG --- TCC CTG CGG CTG CCG --- CTG
> CTA CTT CTG CAG AAG CAT CTG TCC CTG CCG GAG ACG GGG GAG CTG GAT AAT GCC ACC CTG
> GAG GCC ATG CGG GCC CCG CGC TGC GGC GTC CCG GAC GTG GGC AAA TTC CAG ACC TTC GAG
> GGT GAC CTC AAG TGG CAC CAC CAC AAC ATC ACG TAC TGG ATC CAA AAC TAC TCC GAA GAC
> CTG CCG CGC GAC GTC ATC GAC GAC GCC TTC GCC CGC GCC TTT GCG CTG TGG AGC GCG GTG
> ACG CCA CTC ACC TTC ACC CGC GTG TAC AGC CGG GAC GCA GAC ATT GTC ATC CAG TTT GGG
> GTC GCG GAG CAC GGA GAC GGG TAT CCT TTC GAC GGC AAG GAC GGG CTC CTG GCG CAC GCC
> TTC CCT CCT GGC CCC GGC ATT CAG GGA GAT GCC CAC TTC GAC GAC GAA GAG CTG TGG TCC
> CTG GGC AAG GGC GTC GTG GTT CCC ACG TAC TTT GGA AAC GCC GAC GGC GCC CCC TGC CAC
> TTC CCC TTC ACC TTC GAG GGC CGC TCC TAC ACC GCC TGC ACC ACG GAC GGC CGC TCT GAC
> GGC ATG GCC TGG TGC AGC ACC ACG GCC GAC TAT GAC ACC GAC CGT CGG TTT GGC TTC TGC
> CCC AGC GAA AGA CTC TAC ACC CAG GAC GGC AAC GCA GAC GGC AAG CCC TGC GAG TTT CCG
> TTC ATC TTC CAG GGC CGT ACC TAC TCC GCC TGC ACC ACG GAC GGC CGC TCC GAC GGC CAC
> CGC TGG TGC GCC ACC ACC GCC AGC TAC GAC AAG GAC AAG CTC TAC GGC TTC TGC CCG ACC
> CGA GCT GAC TCC ACG GTG GTC GGG GGC AAC TCG GCG GGA GAG CTG TGT GTC TTC CCC TTC
> GTC TTC CTG GGC AAA GAG TAC TCG TCC TGT ACC AGC GAG GGT CGC AGG GAT GGG CGC CTC
> TGG TGT GCC ACC ACT TCC AAC TTT GAC AGC GAC AAG AAG TGG GGC TTC TGC CCT GAT AAA
> GGA TAC AGC CTG TTC CTC GTG GCA GCC CAC GAG TTC GGC CAT GCA CTG GGC TTG GAT CAC
> TCC TCT GTG CCG GAG CGC CTC ATG TAC CCC ATG TAC CGC TAC CTA GAG GGG TCC CCC CTG
> CAC GAG GAC GAC GTC AGG GGC ATC CAG CAT CTA TAT GGT CCT AAC CCC AAC CCC CAG CCT
> --- CCA GCC ACC ACC ACA CCT GAN NNN NNN NNN NNN NNG CCG CAG CCC ACG GCT CCC CCG
> ACG GCC TGC CCC ACC TGG CCG GCC ACT GTG CGC CCC TCC GAG CAC CCC ACT ACC AGC CCT
> ACC GGC GCC CCC TCA GCT GGC CCT ACC GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCC --- CCC ACG GCC AGC CCC TCT GCG GCC CCC ACT --- GCG
> TCC TTG GAC CCA GCT GAA GAC GTC TGC AAC GTG AAT GTC TTC GAC GCC ATC GCC GAG ATA
> GGG AAC AAG CTG CAT GTC TTC AAG GAT GGG AGG TAC TGG --- --- CGG TTC TCC GAG ---
> --- GGC AGT GGG CGC CGG CCG CAG GGC CCC TTC CTC ATC GCC GAC ACC TGG CCC GCG CTG
> CCG GCC AAG CTG GAC TCC GCC TTT GAG GAG CCG CTC ACC AAG AAG CTG TTC TTC TTC TCG
> GGG CGC CAA GTG TGG GTG TAC ACA GGC GCG TCG GTG CTG GGC CCG AGG CGT CTG GAC AAG
> CTG GGC CTG GGT CCC GAG GTG CCG CAC GTC ACC GGA GCC CTC CCG CGC GCC GGG --- GGC
> AAG GTG CTG CTG TTC GGC GCG CAG CGC TTC TGG AGG TTC GAC GTG AAG ACG CAG ACG GTG
> GAT TCC CGG AGC GGC GCT CCG --- --- GTG GAT CAG ATG TTC CCC GGG GTG CCT TTG AAC
> ACA CAC GAC GTC TTC CAG TAC CGA --- GAG AAA GCC TAC --- TTC TGC CAG GAC CGC TTC
> TTC TGG CGT GTG AGT ACC CGG AAC NNN NNN NNN NNN NNN NNN NNN GAG GTG AAC CTA GTG
> GAC CAG GTG GGC TAC GTG AGC TTT GAC ATC CTG CAC TGC CCT
> dog
> GCA GCT CCC AGA CCA CAC --- AAG CCC --- ACC GTT --- GTG GTC TTT CCA GGA GAC CTG
> AGA ACT NNN AAT CTC ACT GAC AAG CAG CTG GCA GAG GAA TAT CTG TTT CGC TAT GGC TAC
> ACT CAA GTG GCC GAG CTG AGC --- GAC GAC AAG CAG --- TCC CTG AGT CGC GGG --- CTG
> CGG CTT CTC CAG AGG CGC CTG GCT CTG CCT GAG ACT GGA GAG CTG GAC AAA ACC ACC CTG
> GAG GCC ATG CGG GCC CCG CGC TGC GGC GTC CCG GAC CTG GGC AAA TTC CAG ACC TTT GAG
> GGC GAC CTC AAG TGG CAC CAC AAC GAC ATC ACT TAC TGG ATA CAA AAC TAC TCG GAA GAC
> TTG CCC CGC GAC GTG ATC GAC GAC GCC TTT GCC CGA GCC TTC GCG GTC TGG AGC GCG GTG
> ACA CCG CTC ACC TTC ACT CGC GTG TAC GGC CCC GAA GCC GAC ATC ATC ATT CAG TTT GGT
> GTT AGG GAG CAC GGA GAT GGG TAT CCC TTC GAT GGG AAG AAC GGG CTT CTG GCT CAC GCC
> TTT CCT CCC GGC CCG GGC ATT CAG GGA GAC GCC CAC TTC GAC GAC GAG GAG TTA TGG ACT
> CTG GGC AAG GGC GTC GTG GTT CCG ACC CAC TTC GGA AAC GCA GAT GGC GCC CCC TGC CAC
> TTC CCC TTC ACC TTC GAG GGC CGC TCC TAC TCG GCC TGC ACC ACG GAC GGC CGC TCC GAT
> GAC ACG CCC TGG TGC AGC ACC ACG GCC GAC TAT GAC ACC GAC CGT CGG TTC GGC TTC TGC
> CCC AGC GAG AAA CTC TAC ACC CAG GAC GGC AAT GGG GAC GGC AAG CCC TGC GTG TTT CCG
> TTC ACC TTC GAG GGC CGC TCC TAC TCC ACG TGC ACC ACC GAC GGC CGC TCG GAC GGC TAC
> CGC TGG TGC TCC ACC ACC GGC GAC TAC GAC CAG GAC AAA CTC TAC GGC TTC TGC CCA ACC
> CGA GTC GAT TCC GCG GTG ACC GGG GGC AAC TCC GCC GGG GAG CCG TGT GTC TTC CCC TTC
> ATC TTC CTG GGC AAG CAG TAC TCG ACG TGC ACC AGG GAG GGC CGC GGA GAT GGG CAC CTC
> TGG TGC GCC ACC ACT TCG AAC TTT GAC AGA GAC AAG AAG TGG GGC TTC TGC CCG GAC CAA
> GGA TAC AGC CTG TTC CTT GTG GCC GCC CAT GAG TTC GGC CAC GCG CTG GGT TTA GAT CAT
> TCA TCG GTG CCA GAA GCG CTC ATG TAC CCC ATG TAC AGC TTC ACC GAG GGC CCC CCC CTG
> CAT GAA GAC GAC GTG AGG GGC ATC CAG CAT CTG TAC GGT CCT CGC CCT GAA CCT GAG CCA
> CAG CCT CCA ACC GCN NNN NNN NNN NNN NNN NNN NNN --- NNC CCG CCC ACC GCC CCG CCC
> ACC GTC TGC GCT ACT GGT CCT CCC ACC ACC CGC CCC TCA GAG CGC CCC ACT GCT GGC CCC
> ACA GGC CCC CCT GCA GCT GGC CCC ACG GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCC --- CCC ACT GCT GGC CCC TCT GAG GCC CCT ACA --- GTG
> CCT GTG GAT CCG GCA GAG GAT ATA TGC AAA GTG AAC ATC TTC GAC GCC ATC GCG GAG ATC
> AGG AAC TAC TTG CAT TTC TTC AAG GAA GGG AAG TAC TGG --- --- CGA TTC TCC AAG ---
> --- GGC AAG GGA CGC CGG GTG CAG GGC CCC TTC CTT ATC ACC GAC ACG TGG CCT GCG CTG
> CCC CGC AAG CTG GAC TCC GCC TTT GAG GAC GGG CTC ACC AAG AAG ACT TTC TTC TTC TCT
> GGG CGC CAA GTG TGG GTG TAC ACA GGC ACG TCG GTG GTA GGC CCG AGG CGT CTG GAC AAG
> CTG GGC CTG GGC CCG GAG GTT ACC CAA GTC ACC GGC GCC CTC CCG CAA GGC GGG --- GGT
> AAG GTG CTG CTG TTC AGC AGG CAG CGC TTC TGG AGT TTC GAC GTG AAG ACG CAG ACC GTG
> GAT CCC AGG AGC GCC GGC TCG --- --- GTG GAA CAG ATG TAC CCC GGG GTG CCC TTG AAC
> ACG CAT GAC ATC TTC CAG TAC CAA --- GAG AAA GCC TAC --- TTC TGC CAG GAC CGC TTC
> TAC TGG CGT GTG AAT TCT CGG AAT NNN NNN NNN NNN NNN NNN NNN GAG GTG AAC CAG GTG
> GAC GAA GTG GGC TAC GTG ACC TTT GAC ATT TTG CAG TGC CCT
> cow
> GCT GTC CCC AGA CGA CGC --- CAG CCC --- ACC GTT --- GTG GTC TTT CCA GGA GAA CCA
> CGA ACC NNN AAC CTC ACC AAC AGG CAG CTG GCA GAG GAA TAC CTG TAC CGC TAT GGC TAC
> ACT CCT GGG GCA GAG CTG AGC --- GAG GAC GGT CAG --- TCC CTG CAG CGA GCT CTG CTG
> CGC --- TTC CAG CGG CGC CTG TCC CTG CCC GAG ACT GGC GAG CTG GAC AGC ACC ACC CTG
> AAC GCC ATG CGA GCC CCG CGC TGC GGC GTC CCA GAC GTG GGC AGA TTC CAG ACC TTT GAG
> GGC GAA CTC AAG TGG CAC CAC CAC AAC ATC ACC TAC TGG ATC CAA AAT TAC TCG GAA GAC
> CTG CCG CGC GCC GTG ATC GAC GAC GCC TTT GCC CGC GCT TTC GCG CTC TGG AGC GCT GTG
> ACG CCG CTC ACC TTC ACT CGA GTG TAC GGC CCC GAA GCT GAC ATT GTC ATC CAG TTT GGT
> GTT AGA GAG CAC GGA GAT GGG TAT CCC TTC GAT GGG AAG AAC GGG CTC CTG GCA CAC GCC
> TTT CCG CCT GGC AAA GGC ATT CAG GGA GAT GCC CAC TTC GAC GAT GAA GAG TTG TGG TCT
> CTG GGC AAA GGC GTT GTG ATC CCG ACC TAC TTC GGA AAC GCG AAG GGC GCC GCC TGC CAC
> TTC CCC TTC ACC TTT GAG GGT CGC TCC TAC TCC GCC TGC ACC ACG GAC GGC CGT TCC GAC
> GAC ATG CTC TGG TGC AGC ACC ACC GCC GAC TAC GAC GCC GAC CGC CAG TTC GGC TTC TGC
> CCC AGC GAG AGA CTC TAC ACC CAG GAC GGC AAT GCG GAC GGC AAG CCC TGC GTC TTC CCG
> TTC ACC TTC CAG GGC CGC ACC TAC TCC GCC TGT ACC TCC GAT GGT CGC TCC GAC GGC TAC
> CGC TGG TGC GCC ACC ACC GCC AAC TAC GAC CAG GAC AAG CTC TAC GGC TTC TGC CCG ACC
> CGA GTC GAT GCA ACG GTG ACC GGG GGC AAC GCG GCG GGG GAG CTG TGC GTC TTC CCC TTC
> ACC TTC CTG GGC AAG GAA TAC TCG GCC TGC ACC AGA GAG GGT CGC AAT GAT GGG CAC CTC
> TGG TGC GCC ACC ACC TCC AAC TTC GAC AAA GAC AAG AAG TGG GGC TTC TGC CCG GAT CAA
> GGA TAC AGC CTG TTC CTT GTG GCC GCA CAC GAG TTT GGC CAC GCG CTG GGC TTA GAT CAC
> ACC TCC GTG CCA GAG GCG CTC ATG TAC CCC ATG TAC AGA TTC ACA GAG GAG CAC CCC CTG
> CAT AGG GAC GAT GTT CAG GGC ATC CAG CAT CTG TAT GGT CCT CGC CCT GAG CCT GAA CCA
> CGG CCT CCG ACC ACT ACC ACC ACT ACC ACC ACC GAA --- CCC CAG CCC ACC GCT CCC CCC
> ACG GTC TGC GTC ACG GGG CCT CCC ACC GCC CGC CCC TCA GAG GGT CCC ACT ACT GGC CCC
> ACA GGG CCC CCG GCA GCT GGC CCT ACG GGT NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN CCT --- CCC ACG GCT GGC CCT TCT GCG GCC CCG ACG GAG TCC
> CCG --- GAT CCA GCG GAG GAC GTC TGC AAC GTG GAC ATC TTC GAC GCC ATC GCG GAG ATT
> AGG AAC CGC TTG CAT TTC TTC AAG GCT GGG AAG TAC TGG --- --- AGA CTT TCT GAG ---
> --- GGA GGG GGC CGC CGG GTG CAG GGT CCC TTC CTT GTC AAG AGC AAG TGG CCT GCG CTG
> CCC CGC AAG CTG GAC TCC GCC TTC GAG GAT CCG CTC ACC AAG AAG ATT TTC TTC TTC TCT
> GGG CGC CAA GTA TGG GTG TAC ACC GGC GCG TCG TTG CTA GGC CCG AGG CGT CTG GAC AAG
> TTG GGC CTG GGC CCG GAA GTG GCC CAG GTC ACC GGG GCC CTC CCG CGC CCT GAG --- GGT
> AAG GTG CTG CTG TTC AGC GGG CAG AGC TTC TGG AGG TTC GAC GTG AAG ACA CAG AAG GTG
> GAT CCC CAG AGC GTC ACC CCC --- --- GTG GAC CAG ATG TTC CCC GGG GTG CCC ATT AGC
> ACG CAC GAC ATC TTT CAG TAC CAA --- GAG AAA GCT TAC --- TTC TGC CAG GAT CAC TTC
> TAC TGG CGC GTG AGT TCC CAG AAT NNN NNN NNN NNN NNN NNN NNN GAG GTG AAT CAG GTG
> GAC TAT GTG GGC TAC GTG ACC TTC GAC CTC CTG AAG TGC CCT
> elephant
> --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---
> --- --- --- --- --- --- --- --- --- --- --- GAG --- TAT CTG TAC CGC TAT GGC TAC
> ACT CGT GTG GCG GAG ATG AAC --- --- AGT AAG GTG --- TCC CTG GGT --- CGA GCG CTA
> AGG CTT CTC CAG CAA AAC CTG GCC CTG CCC GAG ACC GGC GAG CTG GAC AGC ACC ACC CTG
> GAC GCC ATG CGA GCC CCG CGC TGC GGC GTC CCA GAC ATG GGT GGC TTC CAG ACC TTC GAG
> GGT GAC CTC AAG TGG AAC CAC CAC AAC ATC ACA TAC TGG ATC CAA AAC TAC TCG GAA GAC
> TTG CCC AAA CAA GTG ATC GAA GAC GCT TTT GCC CGC GCC TTC GCG GCG TGG AGC GAG GTG
> ACA CCA CTC ACC TTC ACC CGC CTG CGC AGC AGG GAC GTG GAC ATC GTC ATC CGG TTT GGG
> GTC AAG GAG CAC GGA GAC GGG TAT CCT TTC GAC GGG AAG GAC GGG CTG CTG GCA CAC GCC
> TTT CCT CCC GGC CCC GGC ATT CAG GGA GAC GCG CAC TTC GAC GAT GAC GAA TTG TGG TCG
> TTG GGC AAG GGC GTC GTG GTT CCC ACC CGC TTT GGA AAC GCA GAT GGC GCC GCC TGC CAC
> TTT CCC TTC ACC TTC CAG GGC CGC TCG TAC ACT GCC TGC ACC GCC GAC GGC CGC TCC GAC
> GGC CAG CTC TGG TGC AGC ACC ACG GCC GAC TAT GAC ACC GAC CGC CAG TTT GGC TTC TGC
> CCC AGT GAG AGG CTC TAC ACC CAG CAC GGC AAT GAC AAC GGC AAG CCC TGC GTG TTT CCG
> TTC ACG TTC GAG GGC CGC TCC TAC TCG GCC TGC ACC ACC GAC GGC CGC TCG GAT GGC TAC
> CGC TGG TGC GCC ACC ACC GCC AAC TAC GAC CAG GAC AAG CTC TAT GGC TTC TGT CCC ACC
> CGA --- GNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- NNN NNN NNN ---
> --- --- --- --- --- --- --- --- NNN NNN --- NNN NNN NNN --- --- --- --- --- ---
> --- --- --- --- NNN NNN NNN NNN NNN --- --- --- --- --- --- --- --- NNN NNN NNN
> NNN NNN --- --- --- --- NNN --- NNN NNN NNN NNN --- --- --- --- NNN NNN --- ---
> --- --- NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN --- --- NNN NNN NNN NNN ---
> --- --- --- --- --- --- NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN
> NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN NNN --- NNN NNN NNN --- NNN
> NNN ATA GTG CTG TTT AGT AGA CAG CGC TTC TGG AGG TTC GAC GTG AAG ACG CAG ACT GTG
> GAG CCC CGG AGC GTC CGC TCG --- --- GTG GAC CAG GTG TTC TCC GGG GTG CCC TTG GAC
> ACG CAC GAC ATC TTC CAG TAC CGA --- GAG AAA GCC TAC --- TTC TGC CAG GAC CGC TTC
> TAC TGG CGC GTG TGT TTC CGG AAT GAT --- AAT GAA --- --- --- --- GTG AAC CAG GTG
> GAC CAA GTG GGC TAC GTG AAC TTT GAC ATC CTG CAG TGC CCT
> opossum
> GCT GCA CCC CGA GGG GGC CCC TCT CCC GGG TCT ATC TTG ATC ACC TTT CCT GAA GAG AGA
> --- ACA CGC ACT CTC ACT GAC CAG CAA TTT GCT GAG GAA TAT CTG CTT CGG TAC GGC TAC
> ATC CCG --- GCA GGG CTT CTG --- GGC CAA AAC CAC ACT TCT CTG AAG --- CAT GCC TTA
> AAG AAA CTC CAA CGT CAG CTG GCC CTG ACA CAG ACG GGA GAG CTG GAC AGC GCC ACC ATC
> GAG GCA ATG CGG GCC CCG CGC TGC GGA GTA CCC GAC GTC GCC CCA TTC CAA ACC TTC GAG
> GGT GAA CTG AAG TGG AAA CAT CAG AAC ATC ACC TAT CGG ATC CAG AAT TAC TCC CCC GAC
> CTG CCT CCT GAG GTG ACG GAT GAT GCT TTC CAA CGA GCC TTT GCT CTG TGG AGT AAA GTG
> ACC CCA CTC ACC TTC ACA CGT GTC AGC AGC GGG GAG GCA GAC ATC CTG ATC CAG TTT GGG
> ACC AGA GAG CAC GGC GAT GGA TAC CCT TTT GAC GGG AAA GAT GGA CTC TTG GCT CAC GCT
> TTC CCC CCG GGC CCA GGA ATC CAG GGA GAT GCC CAC TTT GAT GAC GAG GAG TTC TGG ACT
> CTA GGC AAA GGC GTC GTG GTC AAA ACG CGG TTC GGG AAC GCA GAC GGA GCC CCC TGC CAC
> TTT CCT TTC ACC TTC GAG GGC AGC TCC TAC TCC GCC TGC ACC ACG GAC GGC CGC TCT GAC
> GGG CTG CAC TGG TGC AGC ACT ACG GCT GAC TAT GAC AAG GAC CGC CTT TAC GGC TTT TGC
> CCT AGC GAG CTG CTC TAC ACC CTG GAT GGT AAC GCC AAT GGC GAT CCC TGC GTG TTC CCC
> TTC ACC TTC GAT GGT CGT TCC TAC ACA GCC TGC ACC ACT GAA GGA CGC TCT GAC GGC TAC
> CGC TGG TGT GCC ACT ACT GCC AGT TAC GAT CAG GAC AAG CTT TAT GGC TTC TGT CCC AAC
> CGA --- GAT ACT GCG GTG AGC GGA GGC AAC TCC CAA GGG GAA CCC TGC GTC TTT CCC TTC
> ACT TTC CTA AAT CGA GAA TAC TCA GCC TGC ACC AGT GAG GGC CGC AGT GAC GGT CGT CTC
> TGG TGT GCG ACC ACC GAT GAC TTC GAT CGG GAT CAC AAG TGG GGC TTC TGT CAG GAT CGA
> GGG TAC AGC TTA TTC CTT GTG GCC GCG CAC GAG TTT GGG CAC GCG CTG GGC TTG GAC CAC
> TCA TCT GTG CCG GAA GCA TTG ATG TTC CCA ATG TAC CGT TTT ACC GAG GGA CCC CCG TTG
> CAT GAG GAT GAC GTG AAG GGA ATC CAA CAT CTG TAT GGT TCT AGG ACT GAG CCG GAT CCG
> GAA CCT CCG ACC TCT --- --- --- TCT CCC TTA GAG --- CCA GAT TCC ACC ACT CAG TTC
> AAT GCT TGT --- --- --- CCC --- TCT GTA --- CCC CCC CCT --- --- --- GCC AGA CCC
> ACC GGC CCT CCT ACT GCT CGC CCC TCA --- --- --- --- --- --- --- --- GCA CCT CCC
> ACT GCT GGA CCC ACT GGT CCT --- CCC ACA GCC AAC CCT CCT GTG CCC CCC ACT --- GGG
> CCC TTG GAC CCA GCT GAC GAC GCT TGT GGC GTC CTG GTA TTT GAT GCC ATC GCT GAG ATT
> CGA GGC CAG CTT CAC TTC TTC AAA GAC GGA CGG TAC TGG CGA GTC CCC AGG GAC TCC ---
> --- AAG --- GGG CCA --- ACT CAA GGA CCC TTC CTC ATT GCT AAC ACT TGG TCT GCT TTG
> CCC CCA AAA CTG GAC TCG GCT TTC GAA GAT CCC CTG ACT AAG AAA CTC TTC TTC TTT TCA
> GGT AAA GGT ATG TGG GTA TAC ACA GGC CAG TCA GTT GTA GGT CCC CGG CGC CTG GAG AAG
> CTG GGT CTG CAT AGC AGA GTT CAA AGG ATA ACA GGT GCC ATT CAG CAT AAT GGA --- GGC
> AAG GTG CTA TTA TTC AGC CAG AAT CAA TAT TGG AGG TTG GAT GTG AAG AAG CAG AAG GTA
> GAC TCA AGA GAA CCT TAC CCT --- --- GTG GAG AAC ATG TTC CCT GGA GTA CCT GAA AAC
> ACT CAT GAT GTT TTC CTG TAT AAG GGA GAT ACA --- TAC --- TTC TGC CAG GGC ATC TTC
> TTC TGG CGC GTG AAC --- --- --- --- --- AAG GAG --- --- --- --- --- AAC AAG GTG
> GAC TTA GTA GGC TAC GTG ACC TAC GAC CTC CTG --- --- ---
> chicken
> GCC GCC CCA CTG CAC AGC --- AAG CCG CAG GCG GTC --- ATC ACC TTC CCA GGG GAG CTG
> --- CTC AGC GCC CCA TCA GAC GTG GAG CTG GCG GAG AAC TAC CTG CTG CGC TTC GGC TAC
> ATC CAG GAG GCA GAG GTG AGG AGG AGC AGC AAG CAC GTG TCC CTG GCC --- AAA GCG CTG
> CGC AGG ATG CAG AAG CAG CTG GGG CTG GAG GAG ACG GGG GAG CTG GAC GCC AGC ACC CTG
> GAG GCC ATG CGA GCC CCC CGC TGT GGG GTG CCT GAC GTG GGG GGT TTC CTC ACC TTC GAG
> GGG GAG CTC AAA TGG GAC CAC ATG GAC CTC ACG TAC CGG GTG ATG AAC TAC TCC CCC GAC
> CTG GAC CGT GCC GTG ATA GAT GAT GCC TTC CGG CGG GCA TTC AAG GTG TGG AGT GAT GTC
> ACT CCC CTC ACC TTC ACC CAG ATT TAC AGC GGC GAG GCA GAC ATC ATG ATC ATG TTC GGC
> AGC CAA GAG CAT GGT GAT GGG TAC CCC TTC GAC GGC AAG GAT GGG CTC CTG GCC CAC GCC
> TTT CCC CCC GGC AGT GGG ATT CAG GGC GAT GCC CAC TTC GAT GAT GAT GAG TTC TGG ACT
> CTG GGA ACC GGC TTA GAG GTG AAG ACC CGC TAT GGG AAT GCC AAC GGG GCC AGC TGC CAC
> TTC CCC TTC ATC TTT GAG GGC CGC TCC TAC TCC CGG TGC ATC ACG GAG GGC CGC ACG GAT
> GGG ATG CTG TGG TGT GCC ACC ACC GCC AGC TAC GAC GCC GAC AAG ACC TAC GGC TTC TGC
> CCC AGC GAG CTG CTC TAC ACC AAT GGT GGC AAC AGC GAT GGG TCT CCC TGC GTC TTC CCC
> TTC ATC TTC GAT GGC GCC TCC TAT GAC ACC TGC ACC ACA GAT GGG CGC TCT GAC GGC TAT
> CGC TGG TGT GCC ACC ACG GCC AAC TTC GAC CAG GAC AAG AAA TAC GGC TTC TGC CCC AAC
> CGA --- GAC ACG GCG GCG ATC GGT GGC AAC TCC CAG GGG GAC CCG TGT GTC TTC CCC TTC
> ACC TTC CTG GGG CAG TCC TAC AGC GCG CGC ACC AGC CAG GGC CGG CAG GAC GGG AAG CTC
> TGG TGT GCC ACC ACC AGC AAC TAT GAC ACC GAC AAG AAG TGG GGC TTC TGC CCA GAC AGA
> GGT TAC AGC ATC TTC TTG GTG GCT GCC CAC GAG TTT GGG CAC TCA CTG GGG CTG GAC CAC
> TCC AGC GTG CGC GAG GCA TTG ATG TAC CCT ATG TAC AGC TAC GTC CAG GAC TTC CAG CTG
> CAT GAG GAT GAT GTC CAG GGC ATC CAG TAC CTC TAT GGT CGT GGC TCT GGC CCT GAG CCC
> ACC CCC CCG --- --- --- --- --- GCA CCT TTG --- --- CCC --- --- ACC GAG GAG ---
> --- --- --- --- --- --- CCC CAG TCC ATA --- CCC ACC GAA --- --- --- GCT --- ---
> --- GGC --- --- AGT GCT TCC ACC ACA --- --- --- --- --- --- --- --- GAG GAG GAG
> GAG GAG --- GAG ACA --- CCT GAG CCC ACA GCT GAG --- --- --- --- CCC AGC --- ---
> CCC GTG GAC CCC AGC CGG GAT GCC TGC ATG GAG AAG AAC TTC GAC GCC ATC ACT GAG ATC
> AAT GGA GAG CTG CAC TTC TTC AAG AAT GGG AAA TAC TGG --- --- ACC CAC TCG TCC TTC
> TGG AAA TCA GGC --- --- ACT CAG GGC GCC TTC TCT ATC GCT GAC ACC TGG CCC GGC CTC
> CCG GCT GTC ATC GAC GCG GCG TTC CAA GAT GTG CTC ACC AAG AGG GTC TTC TTC TTC GCG
> GGA CGG CAG TTC TGG GTG TTC TCC GGC AAG AAC GCA GTG GGC CCC CGT AGG ATT GAG AAG
> TTG GGC ATT GGG AAG GAG GCC GGG CGC ATC ACG GGG GCC CTG CAG CGG GGA CGT --- GGC
> AAA GTG CTG CTC TTC AGT GGG GAG CAC TAC TGG AGG CTG GAC GTG AAG GTC CAG ACA GTG
> GAC --- AAG GGC --- TAC CCC CGT GAC ACT GAT GAT GTC TTT ACT GGT GTC CCC CTT GAC
> GCA CGT AAC GTC TTC CTG TAC CAA --- GAC AAG --- TAC CAC TTC TGC CGG GAC AGC TTC
> TAC TGG AGG ATG ACC --- --- --- --- --- CCA CGT --- --- --- --- --- TAC CAG GTG
> GAC CGC GTG GGA TAC ATC AGA TAC GAC CTC CTG CAG TGC CCC
>
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-- 
Jason Stajich
jason at bioperl.org
http://bioperl.org/wiki/User:Jason


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