| Directory |
Filename |
Type |
Size |
Comment |
| All_Data |
Kellis_Duplication |
zip |
30 Mb |
Download all supplementary information (30Mb
compressed, 70 Mb uncompressed)
|
| | | | |
| S1_Assembly |
Assembly_stats |
xls |
16 kb |
Description of assembly, scaffolds, contigs, and chromosomes
|
|
Kwal_contigs |
fasta |
10,797 kb |
The raw nucleotide sequence of all contigs |
|
Kwal_scaffolds |
txt |
14 kb |
Scaffolds (supercontigs) giving relative order, orientation,
and spacing of contigs
|
| S2_ORFs |
predicted_ORFs |
fasta |
7,459 kb |
Raw nucleotide sequence of all predicted Open Reading
Frames (ORFs)
|
|
predicted_proteins |
fasta |
2,528 kb |
Protein translation of all Open Reading Frames (ORFs)
|
| S3_Annotation |
Kwal_forward |
txt |
993 kb |
Annotation of each K. waltii gene and its best
match to S. cerevisiae (forward: Kwal => Scer) |
|
Kwal_forward_full |
txt |
1,482 kb |
Annotation of each K. waltii gene and all its
matches to S. cerevisiae (forward: Kwal => Scer) |
|
Kwal_homology_groups_large |
txt |
105 kb |
Gene families (groups of genes with ambiguous correspondence)
that contain at least 4 members |
|
Kwal_homology_groups_small |
txt |
182 kb |
Gene families (groups of genes with ambiguous correspondence)
that contain 3 members of fewer |
|
Kwal_reverse |
txt |
776 kb |
Coordinates of each S. cerevisiae gene and its
best match in K. waltii (reverse: Kwal <= Scer)
|
|
Kwal_reverse_full |
txt |
1,086 kb |
Coordinates of each S. cerevisiae gene and all
its matches in K. waltii (reverse: Kwal <= Scer) |
| S4_Blocks |
Kwal_synteny_blocks |
txt |
28 kb |
Blocks of conserved gene order (synteny) between the
two species |
|
Matches_by_chromosome |
xls |
420 kb |
Gene correspondence, grouped by chromosome (shows duplicate
mapping) |
|
Matches_by_chromosome_with_syn |
xls |
480 kb |
Gene correspondence, grouped by chromosome with synteny
block information
|
|
Paired_regions |
xls |
100 kb |
Paired regions in S. cerevisiae as defined by
blocks of doubly conserved synteny (DCS)
|
| S5_Poster |
all_scaffolds |
pdf |
1,200 kb |
Detailed visualization of gene correspondence for every
K. waltii chromosome |
|
poster |
pdf |
1,127 kb |
Detailed visualization of gene correspondence for all
K. waltii chromosomes (single page) |
| S6_Visualization |
all_tiles |
html |
257 kb |
Detailed visualization of paired sister regions interleaved
with K. waltii in 253 DCS blocks |
|
tile_000 |
jpg |
71 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_001 |
jpg |
74 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_002 |
jpg |
120 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_003 |
jpg |
119 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_004 |
jpg |
122 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_005 |
jpg |
113 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_006 |
jpg |
120 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_007 |
jpg |
119 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_008 |
jpg |
104 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_009 |
jpg |
107 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_010 |
jpg |
129 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_011 |
jpg |
78 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_012 |
jpg |
52 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_013 |
jpg |
125 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_014 |
jpg |
105 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_015 |
jpg |
115 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_016 |
jpg |
122 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_017 |
jpg |
73 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_018 |
jpg |
77 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_019 |
jpg |
129 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_020 |
jpg |
38 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_021 |
jpg |
71 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_022 |
jpg |
128 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_023 |
jpg |
107 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_024 |
jpg |
97 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_025 |
jpg |
57 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
(...) (browse) |
|
|
Browse |
|
tile_250 |
jpg |
79 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_251 |
jpg |
115 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
|
tile_252 |
jpg |
80 kb |
Tiling of K. waltii genome in duplicate regions.
See all_tiles.html for index of genes in duplicate regions |
| S7_DupBlocks |
scer_pairs_01 |
pdf |
9 kb |
S. cerevisiae chromosome 1, connected with its
sister regions in S. cerevisiae chromosomes
|
|
scer_pairs_02 |
pdf |
12 kb |
S. cerevisiae chromosome 2, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_03 |
pdf |
11 kb |
S. cerevisiae chromosome 3, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_04 |
pdf |
14 kb |
S. cerevisiae chromosome 4, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_05 |
pdf |
12 kb |
S. cerevisiae chromosome 5, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_06 |
pdf |
11 kb |
S. cerevisiae chromosome 6, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_07 |
pdf |
14 kb |
S. cerevisiae chromosome 7, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_08 |
pdf |
12 kb |
S. cerevisiae chromosome 8, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_09 |
pdf |
12 kb |
S. cerevisiae chromosome 9, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_10 |
pdf |
13 kb |
S. cerevisiae chromosome 10, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_11 |
pdf |
12 kb |
S. cerevisiae chromosome 11, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_12 |
pdf |
14 kb |
S. cerevisiae chromosome 12, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_13 |
pdf |
13 kb |
S. cerevisiae chromosome 13, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_14 |
pdf |
12 kb |
S. cerevisiae chromosome 14, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_15 |
pdf |
13 kb |
S. cerevisiae chromosome 15, connected with its
sister regions in S. cerevisiae chromosomes |
|
scer_pairs_16 |
pdf |
13 kb |
S. cerevisiae chromosome 16, connected with its
sister regions in S. cerevisiae chromosomes |
| S8_DupGenes |
Browse |
html |
141 kb |
Browse three-way nucleotide/protein/translation alignments for all
457 gene pairs
|
|
protein |
tgz |
545 kb |
Download all protein alignments
|
|
nucleotide |
tgz |
977 kb |
Download all nucleotide alignments
|
|
translate |
tgz |
961 kb |
Download all frame-aware nucleotide alignments
(nucleotide alignments that preserve translation)
|
|
YAL015C_YOL043Cp |
txt |
2 kb |
Alignment for duplicated gene pair and its K. waltii
ortholog (p = protein) |
|
YAL015C_YOL043Ct |
txt |
6 kb |
Alignment for duplicated gene pair and its K. waltii
ortholog (t = translate. Nucleotide alignment that preserves translation) |
|
YAL017W_YOL045W |
txt |
21 kb |
Second gene pair => Nucleotide |
|
YAL017W_YOL045Wp |
txt |
7 kb |
Second gene pair => Protein |
|
YAL017W_YOL045Wt |
txt |
21 kb |
Second gene pair => Frame-aware nucleotide |
|
YAL023C_YOR321W |
txt |
11 kb |
(... and so on ...)
|
|
(...) Browse |
|
|
Browse all alignments (nucleotide / protein/ translate) |
|
YOR256C_YPL176C |
txt |
12 kb |
457th gene pair => Nucleotide
|
|
YOR256C_YPL176Cp |
txt |
4 kb |
457th gene pair => Protein |
|
YOR256C_YPL176Ct |
txt |
12 kb |
457th gene pair => Frame-aware nucleotide |
| S9_Trees |
Tree_lengths_protein |
txt |
25 kb |
Protein-divergence branch lengths for gene pairs with
S. bayanus and K. waltii orthologs |
|
Fiveway_trees |
txt |
169 kb |
Protein-divergence trees for gene pairs with S. bayanus
and K. waltii orthologs |
|
Duplicated_Pairs |
xls |
269 kb |
Protein divergence absolute and relative rates for all
pairs and their K. waltii ortholog |
|
Nucleotide_Divergence |
xls |
202 kb |
Nucleotide divergence absolute and relative rates for
all pairs and their K. waltii ortholog |
| S10_Centromeres |
Centromeres |
xls |
17 kb |
K. waltii centromere location, sequence and
pairing with S. cerevisiae. |
|
Chr6_16 |
jpg |
69 kb |
Visualization of K. waltii centromere 1 and its
pairing with Cen6:Cen16 in S. cerevisiae |
|
Chr2_4 |
jpg |
117 kb |
Visualization of K. waltii centromere 2 and its
pairing with Cen2:Cen4 in S. cerevisiae |
|
Chr2_4b |
jpg |
62 kb |
Visualization of K. waltii centromere 2 and its
pairing with Cen2:Cen4 in S. cerevisiae |
|
Chr8_11 |
jpg |
112 kb |
Visualization of K. waltii centromere 3 and its
pairing with Cen8:Cen11 in S. cerevisiae |
|
Chr1_7 |
jpg |
97 kb |
Visualization of K. waltii centromere 4 and its
pairing with Cen1:Cen7 in S. cerevisiae |
|
chr_10_12 |
jpg |
100 kb |
Visualization of K. waltii centromere 5 and its
pairing with Cen10:Cen12 in S. cerevisiae |
|
Chr5_9 |
jpg |
123 kb |
Visualization of K. waltii centromere 6 and its
pairing with Cen5:Cen9 in S. cerevisiae |
|
chr13_15 |
jpg |
127 kb |
Visualization of K. waltii centromere 7 and its
pairing with Cen13:Cen15 in S. cerevisiae |
|
chr3_14 |
jpg |
111 kb |
Visualization of K. waltii centromere 8 and its
pairing with Cen3:Cen14 in S. cerevisiae |
|
Telomere_hits_all |
xls |
947 kb |
Blast hits of telomeric repeat elements against K.
waltii and S. cerevisiae. |
