| File Name |
Description |
Download Link |
| Figure S1 |
Supplemental microscope images for all
chicken-scarlet macaw Zoo-FISH experiments, including the
identification of telometric (TTAGGG) sequences and the 18S, 28S
and 5.8S rRNA genes in the scarlet macaw genome, localization of
telometric repeat sequences and inverted DAPI-banding, and lastly,
the location of NORs in 2 pairs of microchromosomes (arrows,left)
and inverted DAPI-banding (right) |
Download PPTX (4.74 MB) |
| Table S1 |
Scarlet macaw simple de novo assembly statistics |
Download XSLX (34.27 MB) |
| Table S2 |
Scarlet macaw scaffolded de novo assembly
statistics |
Download XSLX (22.68 MB) |
| Table S3 |
Scarlet macaw simple de novo contig positions in the
scaffolded assembly |
Download XSLX (18.21 MB) |
| Table S4 |
Summary of the simple de novo scarlet macaw
comparative genome alignments using blastn |
Download XLSX (54.13MB) |
| Table S5 |
Summary of the scaffolded de novo scarlet macaw
comparative genome alignments using blastn |
Download XLSX (37.42MB) |
| Table S6 |
Summary of repeats predicted in the scarlet macaw simple de
novo assembly using RepeatMasker |
Download ZIP (10.16 MB) |
| Table S7 |
Summary of repeats predicted in the scarlet macaw scaffolded
de novo assembly using RepeatMasker |
Download ZIP (8.74 MB) |
| Table S8 |
Summary of scarlet macaw predicted microsatellites within the
simple de novo assembly using PHOBOS. The table was split
into two parts (S8a,S8b) to reduce file size. |
Download ZIP (44.26 MB) |
| Table S9 |
Summary of scarlet macaw predicted microsattelites within the
scaffolded de novo assembly using PHOBOS. The table was
split into two parts (S9a, S9b) to reduce file size. |
Download ZIP (36.64 MB) |
| Table S10 |
Summary of scarlet macaw putative SNPs predicted within the
simple de novo assembly |
Download CSV (77.61 MB) |
| Table S11 |
Summary of scarlet macaw putative SNPs predicted within the
scaffolded de novo assembly |
Download CSV (75.96 MB) |
| Table S12 |
Summary of scarlet macaw putative annotation models and
corresponding proteins |
Download XLSX (13.55 MB) |
| Table S13 |
Summary of scarlet macaw functional annotation analysis using
DAVID |
Download XLSX (0.27 MB) |
| Table S14 |
Summary of nucleotide-based analysis of divergence |
Download
DOC(0.19 MB) |
| Table S15 |
Summary of conserved outlier quality control analysis |
Download XLSX (0.12 MB) |
| Table S16 |
Example of running sum method for quality trimming |
Download XLSX (0.03 MB) |
| Dataset S1 |
GlimmerHMM predictions are available on the genome project
website |
Go to
project website |