fly2.28s

Alignments

Hannah Marx (3327723)
David E. Giblin (3327717)
Peter W. Dunwiddie (2548099)
David C. Tank (270824)

November 2016

Sequence alignments for each gene region with GenBank accession numbers for each species and the con...

mtDNA Sequence alignment

Michaelides, Sozos N.
While, Geoffrey M.
Zajac, Natalia
Uller, Tobias

April 2015

This file contains the mtDNA sequence alignment of 211 haplotypes used in reconstructing the phyloge...

PGDnointrons_alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran PGD gene sequences from the FLYTREE project in fasta format

fly2.28s

Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)
Isaac S. Winkler (3265701)
Norman B. Barr (824920)
Jung-Wook Kim (3265704)
Christina Lambkin (3265731)
Matthew A. Bertone (187785)
Brian K. Cassel (3265722)
Keith M. Bayless (3265686)
Alysha M. Heimberg (3242925)
Benjamin M. Wheeler (3265689)
Kevin J. Peterson (276002)
Thomas Pape (162691)
Bradley J. Sinclair (3265695)
Jeffery H. Skevington (3265728)
Vladimir Blagoderov (627263)
Jason Caravas (3265716)
Sujatha Narayanan Kutty (3265710)
Urs Schmidt-Ott (3265692)
Gail E. Kampmeier (3265713)
F. Christian Thompson (3265719)
David A. Grimaldi (3265680)
Andrew T. Beckenbach (3265677)
Gregory W. Courtney (3265683)
Markus Friedrich (60215)
Rudolf Meier (92763)
David K. Yeates (3265707)

October 2016

28S rDNA alignment for phylogenetic analysis with ambiguous alignment regions The cut version of 28s...

28S.aln5.22.09

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

This is the uncut 28S rDNA file for T2+T1, with annotations about included regions. Ribosomal genes ...

28SrDNA_alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran 28S ribosomal RNA gene sequences from the FLYTREE project in fasta format

Sequence alignment of 28S ribosomal RNA (28S)

Fátima Jorge (486978)
Ana Perera (687729)
Vicente Roca (3326334)
Miguel Carretero (3326331)
D. James Harris (492802)
Robert Poulin (92651)

November 2016

Sequence alignment of 28S ribosomal RNA (28S) used for the phylogenetic analyses performed in MrBaye...

Alignment of ribosomal region D1/D2, in 28 S rDNA, between C. liquefaciens strain Car17 and related species.

Glauber de S. Araujo (335397)
Fernanda L. Fonseca (335398)
Bruno Pontes (335399)
Andre Torres (335400)
Radames J. B. Cordero (230412)
Rosely M. Zancopé-Oliveira (335401)
Arturo Casadevall (21382)
Nathan B. Viana (335402)
Leonardo Nimrichter (138983)
Marcio L. Rodrigues (247483)
Eloi S. Garcia (123131)
Wanderley de Souza (87693)
Susana Frases (247471)

February 2013

Alignment of ribosomal region D1/D2, in 28 S rDNA, between C. liquefaciens strain Car17 an...

18SrDNA_alnFLYTREE

Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)
Isaac S. Winkler (3265701)
Norman B. Barr (824920)
Jung-Wook Kim (3265704)
Christina Lambkin (3265731)
Matthew A. Bertone (187785)
Brian K. Cassel (3265722)
Keith M. Bayless (3265686)
Alysha M. Heimberg (3242925)
Benjamin M. Wheeler (3265689)
Kevin J. Peterson (276002)
Thomas Pape (162691)
Bradley J. Sinclair (3265695)
Jeffery H. Skevington (3265728)
Vladimir Blagoderov (627263)
Jason Caravas (3265716)
Sujatha Narayanan Kutty (3265710)
Urs Schmidt-Ott (3265692)
Gail E. Kampmeier (3265713)
F. Christian Thompson (3265719)
David A. Grimaldi (3265680)
Andrew T. Beckenbach (3265677)
Gregory W. Courtney (3265683)
Markus Friedrich (60215)
Rudolf Meier (92763)
David K. Yeates (3265707)

October 2016

Alignment of dipteran 18S ribosomal RNA gene sequences from the FLYTREE project in fasta format

26 genes - species phylogeny - original alignments

Dimitrios Floudas (3262605)
Benjamin W. Held (3262596)
Robert Riley (11626)
Laszlo G. Nagy (3262599)
Gage Koehler (3262602)
Anthony S. Ransdell (3262590)
Hina Younus (3262608)
Julianna Chow (3262593)
Jennifer Chiniquy (2815981)
Anna Lipzen (194340)
Andrew Tritt (135481)
Hui Sun (107933)
Sajeet Haridas (819118)
Kurt LaButti (114830)
Robin A. Ohm (114799)
Ursula Kues (3262611)
Robert A. Blanchette (669624)
Igor V. Grigoriev (114869)
Robert E. Minto (2143135)
David S. Hibbett (80937)

October 2016

This folder contains all the original alignments for each one of the 26 genes prior to exclusion of ...

Sequence alignment of 18S ribosomal RNA (18S)

Jorge, Fátima
Perera, Ana
Roca, Vicente
Carretero, Miguel
Harris, D. James
Poulin, Robert

April 2014

Sequence alignment of 18S ribosomal RNA (18S) used for the phylogenetic analyses performed in MrBaye...

Figure S3, Annotated alignment of partial 28S rDNA sequences

Patrick J. Krug (3324354)
Jann E. Vendetti (3362951)
Ryan A. Ellingson (3146595)
Cynthia D. Trowbridge (3362954)
Yayoi M. Hirano (3362957)
Danielle Y. Trathen (3362948)
Albert K. Rodriguez (3362960)
Cornelis Swennen (3362945)
Nerida G. Wilson (489968)
Ángel A. Valdés (3362963)

November 2016

Alignment of a portion of the nuclear large ribosomal subunit rRNA (28S) gene for all taxa, showing ...

alignements_for_phylogeny.tar

Corse, Emmanuel
Meglécz, Emese
Archambaud, Gaït
Ardisson, Morgane
Martin, Jean-François
TOUGARD, Christelle
Chappaz, Rémi
Dubut, Vincent

August 2017

Sequence alignments used for constructing phylogenetic trees of variants and their homologues

Ribosomal phylogeny alignment

Sait, Michelle
Livingstone, Morag
Clark, Ewan M.
Wheelhouse, Nick
Spalding, Lucy
Markey, Bryan
Magnino, Simone
Lainson, F. Alex
Myers, Garry S. A.
Longbottom, David

January 2014

MUSCLE alignment of concatenated protein sequences from 48 ribosomal proteins from species of the fa...

Large_rRNA16S-alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran mitochondrial 16S ribosomal RNA gene sequences from the FLYTREE project in fas...

Alignments

Hannah Marx (3327723)
David E. Giblin (3327717)
Peter W. Dunwiddie (2548099)
David C. Tank (270824)

November 2016

Sequence alignments for each gene region with GenBank accession numbers for each species and the con...

mtDNA Sequence alignment

Michaelides, Sozos N.
While, Geoffrey M.
Zajac, Natalia
Uller, Tobias

April 2015

This file contains the mtDNA sequence alignment of 211 haplotypes used in reconstructing the phyloge...

PGDnointrons_alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran PGD gene sequences from the FLYTREE project in fasta format

fly2.28s

Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)
Isaac S. Winkler (3265701)
Norman B. Barr (824920)
Jung-Wook Kim (3265704)
Christina Lambkin (3265731)
Matthew A. Bertone (187785)
Brian K. Cassel (3265722)
Keith M. Bayless (3265686)
Alysha M. Heimberg (3242925)
Benjamin M. Wheeler (3265689)
Kevin J. Peterson (276002)
Thomas Pape (162691)
Bradley J. Sinclair (3265695)
Jeffery H. Skevington (3265728)
Vladimir Blagoderov (627263)
Jason Caravas (3265716)
Sujatha Narayanan Kutty (3265710)
Urs Schmidt-Ott (3265692)
Gail E. Kampmeier (3265713)
F. Christian Thompson (3265719)
David A. Grimaldi (3265680)
Andrew T. Beckenbach (3265677)
Gregory W. Courtney (3265683)
Markus Friedrich (60215)
Rudolf Meier (92763)
David K. Yeates (3265707)

October 2016

28S rDNA alignment for phylogenetic analysis with ambiguous alignment regions The cut version of 28s...

28S.aln5.22.09

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

This is the uncut 28S rDNA file for T2+T1, with annotations about included regions. Ribosomal genes ...

28SrDNA_alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran 28S ribosomal RNA gene sequences from the FLYTREE project in fasta format

Sequence alignment of 28S ribosomal RNA (28S)

Fátima Jorge (486978)
Ana Perera (687729)
Vicente Roca (3326334)
Miguel Carretero (3326331)
D. James Harris (492802)
Robert Poulin (92651)

November 2016

Sequence alignment of 28S ribosomal RNA (28S) used for the phylogenetic analyses performed in MrBaye...

Alignment of ribosomal region D1/D2, in 28 S rDNA, between C. liquefaciens strain Car17 and related species.

Glauber de S. Araujo (335397)
Fernanda L. Fonseca (335398)
Bruno Pontes (335399)
Andre Torres (335400)
Radames J. B. Cordero (230412)
Rosely M. Zancopé-Oliveira (335401)
Arturo Casadevall (21382)
Nathan B. Viana (335402)
Leonardo Nimrichter (138983)
Marcio L. Rodrigues (247483)
Eloi S. Garcia (123131)
Wanderley de Souza (87693)
Susana Frases (247471)

February 2013

Alignment of ribosomal region D1/D2, in 28 S rDNA, between C. liquefaciens strain Car17 an...

18SrDNA_alnFLYTREE

Brian M. Wiegmann (3265674)
Michelle D. Trautwein (502270)
Isaac S. Winkler (3265701)
Norman B. Barr (824920)
Jung-Wook Kim (3265704)
Christina Lambkin (3265731)
Matthew A. Bertone (187785)
Brian K. Cassel (3265722)
Keith M. Bayless (3265686)
Alysha M. Heimberg (3242925)
Benjamin M. Wheeler (3265689)
Kevin J. Peterson (276002)
Thomas Pape (162691)
Bradley J. Sinclair (3265695)
Jeffery H. Skevington (3265728)
Vladimir Blagoderov (627263)
Jason Caravas (3265716)
Sujatha Narayanan Kutty (3265710)
Urs Schmidt-Ott (3265692)
Gail E. Kampmeier (3265713)
F. Christian Thompson (3265719)
David A. Grimaldi (3265680)
Andrew T. Beckenbach (3265677)
Gregory W. Courtney (3265683)
Markus Friedrich (60215)
Rudolf Meier (92763)
David K. Yeates (3265707)

October 2016

Alignment of dipteran 18S ribosomal RNA gene sequences from the FLYTREE project in fasta format

26 genes - species phylogeny - original alignments

Dimitrios Floudas (3262605)
Benjamin W. Held (3262596)
Robert Riley (11626)
Laszlo G. Nagy (3262599)
Gage Koehler (3262602)
Anthony S. Ransdell (3262590)
Hina Younus (3262608)
Julianna Chow (3262593)
Jennifer Chiniquy (2815981)
Anna Lipzen (194340)
Andrew Tritt (135481)
Hui Sun (107933)
Sajeet Haridas (819118)
Kurt LaButti (114830)
Robin A. Ohm (114799)
Ursula Kues (3262611)
Robert A. Blanchette (669624)
Igor V. Grigoriev (114869)
Robert E. Minto (2143135)
David S. Hibbett (80937)

October 2016

This folder contains all the original alignments for each one of the 26 genes prior to exclusion of ...

Sequence alignment of 18S ribosomal RNA (18S)

Jorge, Fátima
Perera, Ana
Roca, Vicente
Carretero, Miguel
Harris, D. James
Poulin, Robert

April 2014

Sequence alignment of 18S ribosomal RNA (18S) used for the phylogenetic analyses performed in MrBaye...

Figure S3, Annotated alignment of partial 28S rDNA sequences

Patrick J. Krug (3324354)
Jann E. Vendetti (3362951)
Ryan A. Ellingson (3146595)
Cynthia D. Trowbridge (3362954)
Yayoi M. Hirano (3362957)
Danielle Y. Trathen (3362948)
Albert K. Rodriguez (3362960)
Cornelis Swennen (3362945)
Nerida G. Wilson (489968)
Ángel A. Valdés (3362963)

November 2016

Alignment of a portion of the nuclear large ribosomal subunit rRNA (28S) gene for all taxa, showing ...

alignements_for_phylogeny.tar

Corse, Emmanuel
Meglécz, Emese
Archambaud, Gaït
Ardisson, Morgane
Martin, Jean-François
TOUGARD, Christelle
Chappaz, Rémi
Dubut, Vincent

August 2017

Sequence alignments used for constructing phylogenetic trees of variants and their homologues

Ribosomal phylogeny alignment

Sait, Michelle
Livingstone, Morag
Clark, Ewan M.
Wheelhouse, Nick
Spalding, Lucy
Markey, Bryan
Magnino, Simone
Lainson, F. Alex
Myers, Garry S. A.
Longbottom, David

January 2014

MUSCLE alignment of concatenated protein sequences from 48 ribosomal proteins from species of the fa...

Large_rRNA16S-alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran mitochondrial 16S ribosomal RNA gene sequences from the FLYTREE project in fas...

Alignments

Hannah Marx (3327723)
David E. Giblin (3327717)
Peter W. Dunwiddie (2548099)
David C. Tank (270824)

November 2016

Sequence alignments for each gene region with GenBank accession numbers for each species and the con...

mtDNA Sequence alignment

Michaelides, Sozos N.
While, Geoffrey M.
Zajac, Natalia
Uller, Tobias

April 2015

This file contains the mtDNA sequence alignment of 211 haplotypes used in reconstructing the phyloge...

PGDnointrons_alnFLYTREE

Wiegmann, Brian M.
Trautwein, Michelle D.
Winkler, Isaac S.
Barr, Norman B.
Kim, Jung-Wook
Lambkin, Christina
Bertone, Matthew A.
Cassel, Brian K.
Bayless, Keith M.
Heimberg, Alysha M.
Wheeler, Benjamin M.
Peterson, Kevin J.
Pape, Thomas
Sinclair, Bradley J.
Skevington, Jeffery H.
Blagoderov, Vladimir
Caravas, Jason
Kutty, Sujatha Narayanan
Schmidt-Ott, Urs
Kampmeier, Gail E.
Thompson, F. Christian
Grimaldi, David A.
Beckenbach, Andrew T.
Courtney, Gregory W.
Friedrich, Markus
Meier, Rudolf
Yeates, David K.

November 2012

Alignment of dipteran PGD gene sequences from the FLYTREE project in fasta format

Abstract

Extracted data

fly2.28s

Abstract

Extracted data

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