Schema for rRNA Genes - Ribosomal RNA Genes Identified by RNAmmer

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Schema for rRNA Genes - Ribosomal RNA Genes Identified by RNAmmer

Database: DmojCAF1 Primary Table: RNAmmer Row Count: 77 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_2441	`varchar(255)`	values
`chromStart`	498	`int(10) unsigned`	range
`chromEnd`	594	`int(10) unsigned`	range
`name`	RNAmmer_8s_rRNA_1	`varchar(255)`	values
`score`	16	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`hmmScore`	16	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
585	scaffold_2441	498	594	RNAmmer_8s_rRNA_1	16	-	16
585	scaffold_2441	498	613	RNAmmer_8s_rRNA_2	73	-	73.8
585	scaffold_2441	974	1089	RNAmmer_8s_rRNA_3	73	-	73.4
585	scaffold_2693	257	372	RNAmmer_8s_rRNA_4	72	-	72.7
585	scaffold_3669	812	927	RNAmmer_8s_rRNA_5	73	+	73.4
585	scaffold_3670	64	179	RNAmmer_8s_rRNA_6	65	+	65.6
585	scaffold_3670	544	659	RNAmmer_8s_rRNA_7	73	+	73.4
585	scaffold_3670	1021	1136	RNAmmer_8s_rRNA_8	73	+	73.4
585	scaffold_3670	1037	1136	RNAmmer_8s_rRNA_9	25	+	25.6
585	scaffold_4900	368	483	RNAmmer_8s_rRNA_10	73	-	73.4

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

rRNA Genes (RNAmmer) Track Description


	Description This track shows the rRNA gene predictions produced by RNAmmer using the parameters: `-S euk -m lsu,ssu,tsu`. References Lagesen K, Hallin P, Rødland EA, Staerfeldt HH, Rognes T, Ussery DW. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res. 2007;35(9):3100-8.