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: DsuzGB1 Primary Table: RNAmmer Row Count: 10 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	AWUT01015412	`varchar(255)`	values
`chromStart`	5127	`int(10) unsigned`	range
`chromEnd`	7123	`int(10) unsigned`	range
`name`	RNAmmer_18s_rRNA_1	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`hmmScore`	1419.7	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
585	AWUT01015412	5127	7123	RNAmmer_18s_rRNA_1	1000	-	1419.7
585	AWUT01017126	0	3888	RNAmmer_28s_rRNA_2	1000	-	1164.8
585	AWUT01017905	0	295	RNAmmer_28s_rRNA_3	559	-	559.7
585	AWUT01018017	0	2487	RNAmmer_28s_rRNA_4	559	-	559.7
585	KI420085	65624	67612	RNAmmer_18s_rRNA_5	1000	-	1273.6
585	KI420218	3754	3793	RNAmmer_28s_rRNA_6	1000	-	1164.8
585	KI420628	2101	2494	RNAmmer_28s_rRNA_7	559	-	559.7
587	KI421061	350131	350246	RNAmmer_8s_rRNA_8	75	+	75.7
589	KI421329	558933	560935	RNAmmer_18s_rRNA_9	1000	+	1395
589	KI421329	562031	564626	RNAmmer_18s_rRNA_10	348	+	348.1

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.