Data from: Phylogenomic resolution of scorpions reveals multilevel discordance with morphological phylogenetic signal

Sharma PP, Fernández R, Esposito LA, González-Santillán E, Monod L

Date Published: January 29, 2015

DOI: http://dx.doi.org/10.5061/dryad.n0qr5

 

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Title Matrix 1
Downloaded 46 times
Description Supermatrix of 136 orthologs and 26,337 sites. Occupancy: 93.0%. Criterion: At least 36 taxa present for every ortholog.
Download Scor.AL36.phy (1.451 Mb)
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Title Partitions file for Matrix 1
Downloaded 14 times
Description Partitions file for Matrix 1.
Download Alignment.AL36.txt (4.249 Kb)
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Title Matrix 2
Downloaded 12 times
Description Supermatrix of 599 orthologs and 128,842 sites. Occupancy: 86.9%. Criterion: At least 33 taxa present for every ortholog.
Download Scor.AL33.phy (7.101 Mb)
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Title Partitions file for Matrix 2
Downloaded 15 times
Description Partitions file for Matrix 2.
Download AlignmentAL33.txt (22.18 Kb)
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Title Matrix 3
Downloaded 11 times
Description Supermatrix of 1,557 orthologs and 346,260 sites. Occupancy: 80.1%. Criterion: At least 29 taxa present for every ortholog.
Download Scor.AL29.phy (19.08 Mb)
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Title Partitions file for Matrix 3
Downloaded 7 times
Description Partitions file for Matrix 3.
Download AlignmentAL29.txt (59.49 Kb)
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Title Matrix 4
Downloaded 8 times
Description Supermatrix of 5,025 orthologs and 1,113,796 sites. Occupancy: 64.2%. Criterion: At least 19 taxa present for every ortholog.
Download Scor.AL19.phy (61.38 Mb)
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Title Partitions file for Matrix 4
Downloaded 3 times
Description Partitions file for Matrix 4.
Download AlignmentAL19.txt (193.8 Kb)
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Title Matrix 5
Downloaded 8 times
Description Supermatrix of 131 orthologs and 41,615 sites. Occupancy: 81.0%. Criterion: Minimal compositional heterogeneity.
Download Scor.CH.phy (2.294 Mb)
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Title Partitions file for Matrix 5
Downloaded 6 times
Description Partitions file for Matrix 5.
Download AlignmentCH.txt (4.065 Kb)
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Title Matrix 6
Downloaded 5 times
Description Supermatrix of 453 orthologs and 98,370 sites. Occupancy: 87.1%. Criterion: MAtrix REduction (MARE) of ortholog set in Matrix 2.
Download Scor.MARE1.phy (5.422 Mb)
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Title Partitions file for Matrix 6
Downloaded 4 times
Description Partitions file for Matrix 6.
Download AlignmentMARE1.txt (12.49 Kb)
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Title Matrix 7
Downloaded 4 times
Description Supermatrix of 2,580 orthologs and 565,648 sites. Occupancy: 72.0%. Criterion: MAtrix REduction (MARE) of ortholog set in Matrix 4.
Download Scor.MARE2.phy (31.17 Mb)
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Title Partitions file for Matrix 7
Downloaded 3 times
Description Partitions file for Matrix 7.
Download AlignmentMARE2.txt (70.22 Kb)
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Title Matrix 8
Downloaded 3 times
Description Supermatrix of 500 orthologs and 118,851 sites. Occupancy: 81.1%. Criterion: Slowest-evolving (as measured by percent pairwise identity) tertile of ortholog set in Matrix 3.
Download Scor.Slow.phy (6.550 Mb)
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Title Partitions file for Matrix 8
Downloaded 4 times
Description Partitions file for Matrix 8.
Download AlignmentSlow.txt (18.38 Kb)
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Title Matrix 9
Downloaded 4 times
Description Supermatrix of 500 orthologs and 118,260 sites. Occupancy: 80.1%. Criterion: Middle tertile of evolutionary rate (as measured by percent pairwise identity) of ortholog set in Matrix 3.
Download Scor.Mid.phy (6.518 Mb)
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Title Partitions file for Matrix 9
Downloaded 3 times
Description Partitions file for Matrix 9.
Download AlignmentMid.txt (18.40 Kb)
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Title Matrix 10
Downloaded 4 times
Description Supermatrix of 577 orthologs and 109,149 sites. Occupancy: 78.5%. Criterion: Fastest-evolving (as measured by percent pairwise identity) tertile of ortholog set in Matrix 3.
Download Scor.Fast.phy (6.016 Mb)
Details View File Details
Title Partitions file for Matrix 10
Downloaded 6 times
Description Partitions file for Matrix 10.
Download AlignmentFast.txt (20.50 Kb)
Details View File Details
Title Matrix 11
Downloaded 5 times
Description Supermatrix of 67 orthologs and 13,540 sites. Occupancy: 92.7%. Criterion: Intersection of Matrix 1 and BUSCO-Ar data set.
Download SCO.AL36.phy (746.5 Kb)
Details View File Details
Title Partitions file for Matrix 11
Downloaded 2 times
Description Partitions file for Matrix 11.
Download Alignment.SCO.AL36.txt (2.116 Kb)
Details View File Details
Title Matrix 12
Downloaded 10 times
Description Supermatrix of 280 orthologs and 63,274 sites. Occupancy: 86.9%. Criterion: Intersection of Matrix 2 and BUSCO-Ar data set.
Download SCO.AL33.phy (3.487 Mb)
Details View File Details
Title Partitions file for Matrix 12
Downloaded 3 times
Description Partitions file for Matrix 12.
Download Alignment.SCO.AL33.txt (9.151 Kb)
Details View File Details
Title Matrix 13
Downloaded 9 times
Description Supermatrix of 689 orthologs and 162,067 sites. Occupancy: 80.4%. Criterion: Intersection of Matrix 3 and BUSCO-Ar data set.
Download SCO.AL29.phy (8.933 Mb)
Details View File Details
Title Partitions file for Matrix 13
Downloaded 2 times
Description Partitions file for Matrix 13.
Download Alignment.SCO.AL29.txt (23.21 Kb)
Details View File Details
Title Matrix 14
Downloaded 9 times
Description Supermatrix of 1,725 orthologs and 421,446 sites. Occupancy: 66.4%. Criterion: Intersection of Matrix 4 and BUSCO-Ar data set.
Download SCO.AL19.phy (23.22 Mb)
Details View File Details
Title Partitions file for Matrix 14
Downloaded 9 times
Description Partitions file for Matrix 14.
Download Alignment.SCO.AL19.txt (59.16 Kb)
Details View File Details

When using this data, please cite the original publication:

Sharma PP, Fernández R, Esposito LA, González-Santillán E, Monod L (2015) Phylogenomic resolution of scorpions reveals multilevel discordance with morphological phylogenetic signal. Proceedings of the Royal Society B 282(1804): 20142953. http://dx.doi.org/10.1098/rspb.2014.2953

Additionally, please cite the Dryad data package:

Sharma PP, Fernández R, Esposito LA, González-Santillán E, Monod L (2015) Data from: Phylogenomic resolution of scorpions reveals multilevel discordance with morphological phylogenetic signal. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.n0qr5
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