Taxonomy

Metdbid	METDB_00485
Kingdom	Eukaryota
Supergroup	Hacrobia
Phylum	Haptophyta
Class	Prymnesiophyceae
Order	Phaeocystales
Family	Phaeocystaceae
Genus	Phaeocystis
Species	sp
Strain name	RCC908
Strain name synonyms	Biosope_226_FL2-3
TaxNCBI	464236
TaxWoRMS
Readset (paired)	RCC908 - ERR3497209
Annotation search	Link to associated annotation search function

Environmental parameters

Longitude	-73.33
Latitude	-33.87
Site	Pacific Ocean
Site description	Chile Sea
Country	CHILE
Habitat	marine habitat

Assembly metrics

Percentage of remapping of all readsets on transcriptom	91.3%
Percentage of good mapping	80%
Number of contigs	78,817
Largest contig	4,940
Number of bases	46,923,366
Contigs average lenght	595.3
Number of contigs with orf	34,681
n50	783
GC	0.65984
Transcriptome analysis project
Origin of the datasets	RCC
Assembly Type	paired
Trinity version	trinity-v2.4.0

Annotation metrics

Transdecoder: Number of predicted proteins
BUSCO against eukaryota_odb9	Complete BUSCOs 49.83% (151) Complete and single-copy BUSCOs 29.04% (88) Complete and duplicated BUSCOs 20.79% (63) Fragmented BUSCOs 28.05% (85) Missing BUSCOs 22.11% (67) Total BUSCO groups searched 100.00% (303)
Interproscan: Number of proteins with interproscan match	Pfam Interproscan ID Gene ontology ID KEGG ID PRINTS
Cmsearch	tRNA tmRNA SSU_rRNA_eukarya LSU_rRNA_eukarya 5_8S_rRNA Others
Diamond against Uniref90_v7-2019

Associated result files

Reference Assembly

Contigs fasta file	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired.fasta

Reads remapping to assembly

Quantification file (sf)	quant.sf
Metadata info (json)	RCC_phaeocystis-sp-biosope-226-fl2-3_salmon-v0.9.1_roscoff.json

Assembly metrics

Contigs metrics (csv)	contigs.csv
Contigs with good mapping (fasta)	good.METDB-00485_phaeocystis-sp-biosope226fl2-3.fasta.gz
Contigs with bad mapping (fasta)	bad.METDB-00485_phaeocystis-sp-biosope226fl2-3.fasta.gz
Assembly metrics file (csv)	RCC_phaeocystis-sp-biosope-226-fl2-3_transrate-v1.0.2_roscoff.csv

Annotation files

InterProscan: Protein sequence analysis and classification	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired_full_i5_annotations
Diamond: for aligning Transcripts against NCBI NR	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired.diamond_matches
Transdecoder: Find Coding Regions Within Transcripts	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired_cut.cleaned.fasta.transdecoder.pep
BUSCO: assessment of transcriptome completeness	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired_BUSCO_short_summary.txt
Cmsearch: Use of Covariance model (CM) to search for homologous RNAs Within Transcriptoms	RCC-METDB_00485-phaeocystis-sp-biosope226fl2-3-paired_cat_cmsearch_matches.tbl.deoverlapped

Quality file

Read quality file	BBD_AAEAOSW_2_1_C1JHLACXX.IND7_noribo_clean.fastq.P.qtrim_fastqc.zip
Read quality file	BBD_AAEAOSW_2_2_C1JHLACXX.IND7_noribo_clean.fastq.P.qtrim_fastqc.zip