seeds-specific-txt

A TXT-type anvi’o artifact. This artifact is typically generated, used, and/or exported by anvi’o (and not provided by the user)..

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Provided by

There are no anvi’o tools that generate this artifact, which means it is most likely provided to the anvi’o ecosystem by the user.

Required or used by

There are no anvi’o tools that use or require this artifact directly, which means it is most likely an end-product for the user.

Description

This tabular file contains data on the specific coverages of tRNA-seq seeds.

Specific coverage represents reads that are assigned uniquely to a tRNA seed. See the trnaseq-profile-db artifact for a fuller explanation of specific versus nonspecific coverage. The rows and columns of this table are identical to seeds-non-specific-txt except the type of coverage data reported in each.

This file is produced by anvi-tabulate-trnaseq. The artifact for that program describes this and related tables in detail.

This tab-delimited file can be easily manipulated by the user. It is required input for anvi-plot-trnaseq.

Example

The seeds shown in this table are also shown in the seeds-non-specific-txt example. Modifications from these seeds are shown in the modifications-txt example.

gene_callers_id	contig_name	anticodon	aa	domain	phylum	class	order	family	genus	species	taxon_percent_id	sample_name	mean_coverage	relative_mean_coverage	relative_discriminator_coverage	0	1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	17a	18	19	20	20a	20b	21	22	23	24	25	26	27	28	29	30	31	32	33	34	35	36	37	38	39	40	41	42	43	44.01	44.02	44.03	44.04	44.05	44.06	44.07	44.08	44.09	44.1	44.11	44.12	44.13	44.14	44.15	44.16	44.17	44.18	44.19	44.2	44.21	44.22	44.23	49	50	51	52	53	54	55	56	57	58	59	60	61	62	63	64	65	66	67	68	69	70	71	72	73
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_01	71456.2	0.25805309	0.2578848		71392	71398	71398	71400	71413	71414	71414	71414	71419	71425	71426	71426	71426	71437	71445	71451	71451		71451	71455	71457			71460	71467	71467	71471	71468	71470	71470	71470	71475	71489	71540	71534	71529	71606	71579	71582	71583	71586	71586	71583	71583	71583	71585	71584	71584	71584	71587	71587																			71586	71586	71572	71572	71570	71504	71505	71504	71503	71503	71503	71503	71503	71503	71503	71503	71502	71500	71500	71500	71497	71496	71488	71466	68324
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_03	87746.6	0.22523292	0.22512637		87568	87582	87588	87594	87598	87599	87596	87597	87598	87606	87608	87611	87611	87611	87612	87615	87615		87614	87614	87616			87617	87619	87619	87620	87620	87620	87621	87619	87620	87630	87689	87683	87694	87732	87898	87912	87921	87925	87926	87926	87926	87931	87924	87925	87929	87981	87986	87986																			87985	87985	87981	87980	87978	87952	87952	87951	87952	87954	87952	87950	87946	87946	87946	87943	87941	87939	87939	87939	87936	87935	87929	87909	84530
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_05	29533	0.22692849	0.22190602		29490	29494	29499	29509	29516	29516	29518	29521	29525	29528	29536	29536	29536	29538	29539	29547	29550		29550	29549	29553			29552	29552	29553	29552	29553	29553	29549	29550	29552	29553	29564	29561	29559	29638	29605	29602	29604	29607	29607	29607	29608	29607	29607	29607	29607	29607	29609	29609																			29609	29609	29606	29606	29605	29601	29601	29601	29601	29601	29599	29599	29599	29599	29596	29596	29597	29595	29595	29594	29593	29504	29486	29451	26980
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_07	47065	0.181019	0.18087983		47078	47087	47105	47113	47114	47114	47114	47116	47124	47127	47129	47129	47131	47133	47139	47139	47139		47135	47138	47141			47145	47142	47147	47145	47145	47142	47143	47135	47134	47133	47154	47125	47093	47111	47051	47058	47067	47071	47073	47072	47069	47069	47069	47072	47072	47073	47073	47074																			47074	47074	47073	47069	47069	47042	47043	47042	47038	47042	47042	47042	47042	47041	47041	47040	47040	47040	47040	47040	47033	47032	47031	47018	45352
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_01	142.4	0.00051437	0.00052465		141	142	142	142	142	142	142	142	142	142	142	142	142	142	142	142	142		142	142	142	142		142	142	142	142	142	142	142	142	142	142	142	142	141	141	143	143	143	143	143	143	143	143	143	143	143	143	143	143																			143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	143	139
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_03	1006.4	0.00258316	0.00249815		1010	1010	1010	1010	1011	1011	1011	1011	1011	1010	1010	1010	1010	1010	1010	1010	1011		1011	1011	1014	1014		1014	1014	1014	1014	1014	1014	1014	1014	1014	1014	1014	1014	1013	1012	1012	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003																			1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	1003	998	998	938
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_05	297.5	0.00228586	0.00285402		225	227	227	227	227	227	225	228	228	230	230	230	230	230	230	230	230		230	230	230	230		232	232	232	232	232	232	232	232	232	232	232	232	232	232	232	233	238	360	367	367	367	370	370	370	370	370	370	370																			370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	370	362	362	347
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_07	120	0.00046169	0.00046664		116	116	116	116	116	116	116	116	116	119	119	119	118	118	118	118	118		119	122	126	126		126	126	126	126	126	126	126	126	126	126	126	124	124	122	123	120	120	120	120	119	119	119	119	119	119	119	119	119																			119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	119	117	117	117

Edit this file to update this information.