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: DperCAF1 Primary Table: RNAmmer Row Count: 123 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	652	`smallint(5) unsigned`	range
`chrom`	super_0	`varchar(255)`	values
`chromStart`	8826987	`int(10) unsigned`	range
`chromEnd`	8827102	`int(10) unsigned`	range
`name`	RNAmmer_8s_rRNA_1	`varchar(255)`	values
`score`	77	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`hmmScore`	77.5	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
652	super_0	8826987	8827102	RNAmmer_8s_rRNA_1	77	-	77.5
652	super_0	8827336	8827451	RNAmmer_8s_rRNA_2	77	-	77.5
652	super_0	8827773	8827888	RNAmmer_8s_rRNA_3	77	-	77.5
585	super_1032	988	1103	RNAmmer_8s_rRNA_4	77	+	77.5
585	super_1032	1430	1547	RNAmmer_8s_rRNA_5	77	+	77.4
585	super_1032	3227	3342	RNAmmer_8s_rRNA_6	61	+	61.5
585	super_1032	6207	6322	RNAmmer_8s_rRNA_7	55	+	55.4
585	super_1032	6642	6757	RNAmmer_8s_rRNA_8	75	+	75.2
585	super_1075	942	1057	RNAmmer_8s_rRNA_9	61	+	61.5
585	super_1075	3124	3242	RNAmmer_8s_rRNA_10	66	+	66.3

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.