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: DrhoGB2 Primary Table: RNAmmer Row Count: 19 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	AFPP02008592	`varchar(255)`	values
`chromStart`	886	`int(10) unsigned`	range
`chromEnd`	1063	`int(10) unsigned`	range
`name`	RNAmmer_18s_rRNA_1	`varchar(255)`	values
`score`	798	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`hmmScore`	798.5	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
585	AFPP02008592	886	1063	RNAmmer_18s_rRNA_1	798	+	798.5
585	AFPP02008593	0	1203	RNAmmer_18s_rRNA_2	798	+	798.5
585	AFPP02008594	0	722	RNAmmer_18s_rRNA_3	798	+	798.5
585	AFPP02008958	0	1535	RNAmmer_28s_rRNA_4	829	+	829.3
585	AFPP02008959	0	1178	RNAmmer_28s_rRNA_5	829	+	829.3
585	AFPP02008960	0	1008	RNAmmer_28s_rRNA_6	829	+	829.3
585	AFPP02012738	374	489	RNAmmer_8s_rRNA_7	76	+	76.4
585	AFPP02012738	824	939	RNAmmer_8s_rRNA_8	76	+	76.4
585	AFPP02023986	543	1083	RNAmmer_18s_rRNA_9	681	-	681.1
585	AFPP02023987	0	1026	RNAmmer_18s_rRNA_10	681	-	681.1

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.