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: DkikGB2 Primary Table: RNAmmer Row Count: 18 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	AFFH02001535	`varchar(255)`	values
`chromStart`	2029	`int(10) unsigned`	range
`chromEnd`	2143	`int(10) unsigned`	range
`name`	RNAmmer_8s_rRNA_1	`varchar(255)`	values
`score`	66	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`hmmScore`	66.2	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	hmmScore
585	AFFH02001535	2029	2143	RNAmmer_8s_rRNA_1	66	-	66.2
586	AFFH02001836	167906	168021	RNAmmer_8s_rRNA_2	76	-	76.9
586	AFFH02001836	168376	168492	RNAmmer_8s_rRNA_3	70	-	70.5
586	AFFH02001836	168847	168962	RNAmmer_8s_rRNA_4	76	-	76.9
585	AFFH02002223	4879	5345	RNAmmer_28s_rRNA_5	260	+	260
585	AFFH02002224	0	1281	RNAmmer_28s_rRNA_6	260	+	260
585	AFFH02002225	0	1035	RNAmmer_28s_rRNA_7	260	+	260
585	AFFH02002226	0	205	RNAmmer_28s_rRNA_8	260	+	260
585	KB458688	72	1637	RNAmmer_18s_rRNA_9	181	-	181.4
586	KB458688	192563	192677	RNAmmer_8s_rRNA_10	46	-	46.9

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.