Overview Sequencing Summary Assembly Summary Repeat masking GeMoMa prediction MAKER prediction Non-coding RNA genes Functional Protein Classification Protein domain annotation Comparative Genomics DOGMA analysis BUSCO analysis

Description

This page was designed to hold the sequencing data, which was used for further analysis in the P. californicus genome project. This table describes different sequencing approaches from P. californicus genome sequencing. Here you can also see genomic as well as transcriptomic data from NGS and TGS approaches used for P. californicus annotation.

Sequencing Data

Species	Sequencing method	Data source	Sample limitations	Length of reads	Number of reads	Sequencing coverage	GC-content	FastQC Reports	Notes	Sequence Graphs
Pogonomyrmex californicus	10x Genomics	Genomic DNA	-	150 bp	269.953.173	162	39 %	[forward untrimmed] [reverse untrimmed]	-	-
Pogonomyrmex californicus	Illumina Hiseq 3000	Genomic DNA	-	100 bp	339.494.313	136	39 %	[forward trimmed] [reverse trimmed]	-	-
Pogonomyrmex californicus	MinION	Genomic DNA	-	501-22,619 bp total: 127,813,973 bp	131.828	0.5	35.36 %	FastQC Reports currently not available	-	Download Sequence distribution: [Sequence distribution] Download BLAST indentity distribution: [Sequence BLAST identity distribution] Download BLAST indentity longer 1kb distribution: [Sequence BLAST 1kb identity distribution]
Pogonomyrmex californicus	Illumina Hiseq 2000	RNA	just from head	20-101 bp	91.928.601	-	37 %	[forward trimmed] [reverse trimmed]	Data is published here. The Data is available on SRA Database.	-
Pogonomyrmex californicus	MinION MK1B Preperation kit: SQK-PCS108 from ONT Flow cell: FLO-MIN107 R9	RNA	just from male ants	49-6,182 bp	untrimmed: 394,085 trimmed: 8,184	-	38 %	[untrimmed] [trimmed]	Download Nanopipe assembly: [filtered 500 bp nanopipe results] TODO: Download Nanopipe raw reads: [filtered 500 bp nanopipe results]	-