seeds-non-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 nonspecific coverages of tRNA-seq seeds.

Nonspecific coverage represents reads that are not unique to a single 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-specific-txt except for 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 optional input for anvi-plot-trnaseq.

Example

The seeds shown in this table are also shown in the seeds-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	100372.4		14497	14608	14815	14882	14985	15828	15854	15895	16410	16565	16840	16960	16975	16990	17490	18529	19087		19683	21763	24353			24699	25182	29097	30476	30609	30612	30491	30125	29973	29506	29417	26259	31169	145828	153750	155936	156187	156518	157233	157226	157178	157429	158124	159941	164453	167924	170595	170567																			170572	170577	170547	170541	170326	169581	169509	169509	169497	169497	169494	169491	168727	168721	168719	168719	168719	168719	168719	168719	168489	168485	168480	167688	155628
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_03	203816.6		10498	10599	11105	11217	11255	11270	11350	11444	12349	12539	13028	13331	13337	13390	14325	15079	15603		15769	18168	21167			23927	24910	27041	28271	28395	28604	28612	28749	29242	30775	32254	33570	44299	319895	335328	337653	341382	342776	344543	345794	345762	345808	346281	347647	354052	360294	361948	361948																			362317	362317	362303	362303	362226	362056	362056	362056	362056	362050	362046	362044	362044	362044	362044	362044	362032	362027	362027	362027	361349	361349	361349	360094	345770
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_05	26137.9		5111	5184	5259	5704	5979	5979	5979	6011	6550	6587	6587	6611	6611	6611	6936	7087	7090		7170	8243	9158			9488	9868	12268	12323	12866	12616	12506	12640	12630	12838	12292	11336	11621	36476	37479	38030	38892	39018	39018	39084	39068	39272	39272	39272	40666	41573	41879	41873																			42019	42019	42015	42015	41996	41873	41857	41695	41689	41689	41689	41689	41683	41683	41683	41569	41569	40839	40839	40839	40839	40538	40495	40464	36174
0	c_000000684460_DB_R05_06	TAC	Val	Bacteria	Firmicutes	Clostridia	Lachnospirales	Lachnospiraceae			100	DB_07	182536.6		16048	16134	16358	16639	16664	16679	16679	16757	17351	17494	17494	17547	17613	17737	18346	18771	18776		19172	20831	21986			22549	22933	25352	26246	26370	25534	25798	25385	25277	25529	25758	25079	33202	289207	300224	303731	306231	306774	307692	307695	307604	307604	307828	308578	314195	317240	321017	321023																			321634	321634	321615	321615	321596	321066	321066	321066	321066	321066	321066	321066	321066	321066	321066	321066	321066	321066	321059	321059	320379	320373	320363	320230	303028
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_01	3923.1		32	32	32	32	32	32	32	32	32	32	33	33	33	33	33	33	33		33	50	79	82		82	82	82	82	82	82	82	90	90	90	96	109	118	117	125	163	320	7564	7948	7970	7991	7991	7991	8014	8014	8016	8041	8041																			8041	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8046	8022	8022	8022	8021	7961	7955	7213
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_03	8502		27	27	27	29	29	31	31	43	49	59	59	59	59	59	59	59	59		59	60	65	65		65	65	65	65	65	65	65	72	72	78	78	92	116	140	173	236	679	16238	17144	17344	17428	17428	17452	17482	17482	17482	17482	17482																			17482	17482	17482	17482	17482	17482	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17480	17411	17320	16198
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_05	1254.6		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0		0	4	18	18		18	18	18	18	26	26	26	32	32	32	32	40	45	45	60	62	89	2379	2492	2502	2562	2594	2604	2604	2604	2604	2604	2604																			2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2604	2557	2557	2557	2557	2446	2426	2058
1	c_000000805276_DB_R05_05	ACG	Arg	Bacteria	Firmicutes						98.649	DB_07	4217.8		60	60	60	60	60	60	60	64	72	78	78	78	78	78	78	78	78		78	90	107	107		107	113	113	113	113	119	119	117	117	117	120	120	132	140	172	212	410	7980	8475	8539	8553	8584	8594	8594	8594	8594	8599	8599																			8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8599	8546	8546	8124

Edit this file to update this information.