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: DserGB1 Primary Table: RNAmmer Row Count: 381 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	MTTC01000859	`varchar(255)`	values
`chromStart`	80	`int(10) unsigned`	range
`chromEnd`	194	`int(10) unsigned`	range
`name`	RNAmmer_8s_rRNA_1	`varchar(255)`	values
`score`	78	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`hmmScore`	78.5	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
585	MTTC01000859	80	194	RNAmmer_8s_rRNA_1	78	-	78.5
585	MTTC01000859	499	614	RNAmmer_8s_rRNA_2	78	-	78.9
585	MTTC01000859	919	1033	RNAmmer_8s_rRNA_3	78	-	78.5
585	MTTC01000859	1337	1452	RNAmmer_8s_rRNA_4	78	-	78.9
585	MTTC01000859	1759	1873	RNAmmer_8s_rRNA_5	78	-	78.5
585	MTTC01000859	2180	2294	RNAmmer_8s_rRNA_6	78	-	78.5
585	MTTC01000859	2601	2715	RNAmmer_8s_rRNA_7	78	-	78.5
585	MTTC01000859	3021	3135	RNAmmer_8s_rRNA_8	78	-	78.5
585	MTTC01000859	3442	3556	RNAmmer_8s_rRNA_9	78	-	78.5
585	MTTC01000859	3862	3976	RNAmmer_8s_rRNA_10	78	-	78.5

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.