tRNAscan-SE Analysis of the Lactobacillus johnsonii NCC 533 Genome

[Main Overview] [Secondary Structures]	[Analysis Notes]
[tRNAs by Isotype] [tRNAs by Locus]	[Run Options/Stats]
[tRNA Alignments][FASTA Seqs]	[Genome DB] [Genome Seq]

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tRNAs Sorted by tRNA Isoacceptor Type

plain text version

[Ala] [Arg] [Asn] [Asp] [Cys] [Gln] [Glu] [Gly] [His] [Ile] [Leu] [Lys] [Met] [Phe] [Pro] [Ser] [Thr] [Trp] [Tyr] [Val]
[Selenocysteine] [Possible pseudogene] [Undetermined]

Sequence Name	tRNA #	tRNA Bounds		Link to Genome Browser	tRNA Isotype	Anticodon	Intron Bounds		Scores			First-Pass Scanner
Sequence Name	tRNA #	Begin	End	Link to Genome Browser	tRNA Isotype	Anticodon	Begin	End	Total (Cove)	HMM	2' Str	First-Pass Scanner

chr	18	1888132	1888060	View	Ala	TGC	0	0	76.90	63.86	13.04	Both
chr	21	1882617	1882545	View	Ala	TGC	0	0	76.90	63.86	13.04	Both

chr	29	1680388	1680315	View	Arg	ACG	0	0	70.13	52.46	17.67	Eufind
chr	56	1665939	1665866	View	Arg	ACG	0	0	70.13	52.46	17.67	Eufind

chr	14	707462	707534	View	Arg	CCT	0	0	55.30	28.92	26.38	Both

chr	73	1454747	1454674	View	Arg	TCT	0	0	76.81	46.77	30.04	Both

chr	10	563466	563538	View	Asn	GTT	0	0	85.15	58.52	26.63	Both
chr	22	1879324	1879252	View	Asn	GTT	0	0	85.15	58.52	26.63	Both
chr	66	1659788	1659716	View	Asn	GTT	0	0	85.15	58.52	26.63	Both
chr	19	1884839	1884764	View	Asn	GTT	0	0	93.45	66.79	26.66	Both

chr	34	1679936	1679864	View	Asp	GTC	0	0	62.03	34.14	27.89	Both
chr	61	1665487	1665415	View	Asp	GTC	0	0	62.03	34.14	27.89	Both
chr	42	1678034	1677962	View	Asp	GTC	0	0	75.58	47.69	27.89	Both

chr	48	1677533	1677463	View	Cys	GCA	0	0	67.47	43.18	24.29	Both

chr	16	828382	828454	View	Gln	CTG	0	0	57.22	23.46	33.76	Both

chr	68	1633407	1633336	View	Gln	TTG	0	0	62.43	30.18	32.25	Both
chr	70	1631363	1631292	View	Gln	TTG	0	0	62.43	30.18	32.25	Both
chr	47	1677625	1677554	View	Gln	TTG	0	0	63.39	34.20	29.19	Both

chr	15	828305	828376	View	Glu	CTC	0	0	60.33	29.32	31.01	Both

chr	75	1317009	1316937	View	Glu	TTC	0	0	60.61	29.35	31.26	Both
chr	7	340727	340798	View	Glu	TTC	0	0	62.50	29.32	33.18	Both
chr	12	563769	563840	View	Glu	TTC	0	0	63.58	37.33	26.25	Both
chr	39	1678307	1678236	View	Glu	TTC	0	0	64.02	33.56	30.46	Both

chr	77	228961	228891	View	Gly	CCC	0	0	54.31	36.46	17.85	Both

chr	27	1680567	1680496	View	Gly	GCC	0	0	83.89	62.16	21.73	Both
chr	54	1666118	1666047	View	Gly	GCC	0	0	83.89	62.16	21.73	Both
chr	4	327595	327669	View	Gly	GCC	0	0	87.51	69.08	18.43	Both

chr	36	1679769	1679696	View	Gly	TCC	0	0	66.15	38.59	27.56	Both
chr	63	1665320	1665247	View	Gly	TCC	0	0	66.15	38.59	27.56	Both

chr	46	1677705	1677630	View	His	GTG	0	0	60.26	39.98	20.28	Both

chr	17	1888241	1888168	View	Ile	GAT	0	0	91.79	70.28	21.51	Both
chr	20	1882726	1882653	View	Ile	GAT	0	0	91.79	70.28	21.51	Both
chr	37	1679687	1679614	View	Ile	GAT	0	0	91.79	70.28	21.51	Both
chr	64	1665238	1665165	View	Ile	GAT	0	0	91.79	70.28	21.51	Both

chr	71	1609384	1609296	View	Leu	AAG	0	0	62.75	36.98	25.77	Both

chr	49	1677431	1677348	View	Leu	CAA	0	0	61.65	35.58	26.07	Both

chr	72	1554034	1553948	View	Leu	CAG	0	0	58.98	21.34	37.64	Both

chr	28	1680483	1680398	View	Leu	TAA	0	0	67.41	41.59	25.82	Both
chr	55	1666034	1665949	View	Leu	TAA	0	0	67.41	41.59	25.82	Both

chr	25	1680744	1680660	View	Leu	TAG	0	0	69.44	48.30	21.14	Both
chr	52	1666295	1666211	View	Leu	TAG	0	0	69.44	48.30	21.14	Both

chr	78	87689	87617	View	Lys	CTT	0	0	84.99	60.14	24.85	Both
chr	79	86009	85937	View	Lys	CTT	0	0	84.99	60.14	24.85	Both

chr	24	1680837	1680765	View	Lys	TTT	0	0	84.26	55.87	28.39	Both
chr	51	1666388	1666316	View	Lys	TTT	0	0	84.26	55.87	28.39	Both

chr	31	1680205	1680132	View	Met	CAT	0	0	73.74	65.23	8.51	Both
chr	58	1665756	1665683	View	Met	CAT	0	0	73.74	65.23	8.51	Both
chr	33	1680013	1679940	View	Met	CAT	0	0	76.97	51.38	25.59	Both
chr	60	1665564	1665491	View	Met	CAT	0	0	76.97	51.38	25.59	Both
chr	41	1678111	1678038	View	Met	CAT	0	0	77.97	49.55	28.42	Both
chr	32	1680118	1680045	View	Met	CAT	0	0	89.60	63.95	25.65	Both
chr	59	1665669	1665596	View	Met	CAT	0	0	89.60	63.95	25.65	Both

chr	9	341099	341172	View	Phe	GAA	0	0	52.20	30.79	21.41	Both
chr	35	1679859	1679787	View	Phe	GAA	0	0	77.44	61.50	15.94	Both
chr	43	1677956	1677884	View	Phe	GAA	0	0	77.44	61.50	15.94	Both
chr	62	1665410	1665338	View	Phe	GAA	0	0	77.44	61.50	15.94	Both

chr	5	327710	327783	View	Pro	CGG	0	0	58.48	54.46	4.02	Eufind

chr	30	1680309	1680236	View	Pro	TGG	0	0	87.66	66.87	20.79	Both
chr	57	1665860	1665787	View	Pro	TGG	0	0	87.66	66.87	20.79	Both

chr	76	775903	775832	View	Pseudo	CCG	0	0	32.37	4.86	27.51	Both

chr	74	1330556	1330469	View	Ser	CGA	0	0	73.06	45.24	27.82	Both

chr	38	1679611	1679522	View	Ser	GCT	0	0	56.58	27.27	29.31	Both
chr	65	1665162	1665073	View	Ser	GCT	0	0	56.58	27.27	29.31	Both

chr	11	563561	563650	View	Ser	GGA	0	0	55.38	14.93	40.45	Both

chr	6	340597	340667	View	Ser	TGA	0	0	40.16	20.08	20.08	Eufind
chr	40	1678209	1678119	View	Ser	TGA	0	0	55.88	22.57	33.31	tRNAscan

chr	1	19503	19578	View	Thr	AGT	0	0	82.73	59.86	22.87	Both
chr	2	21315	21390	View	Thr	AGT	0	0	82.73	59.86	22.87	Both

chr	67	1643839	1643767	View	Thr	CGT	0	0	78.85	55.72	23.13	Both

chr	3	209038	209110	View	Thr	GGT	0	0	63.60	40.82	22.78	Both

chr	26	1680658	1680586	View	Thr	TGT	0	0	88.52	70.28	18.24	Both
chr	53	1666209	1666137	View	Thr	TGT	0	0	88.52	70.28	18.24	Both

chr	45	1677790	1677720	View	Trp	CCA	0	0	45.48	19.77	25.71	Eufind

chr	8	340937	341018	View	Tyr	GTA	0	0	46.08	12.34	33.74	Both
chr	44	1677879	1677798	View	Tyr	GTA	0	0	64.08	32.70	31.38	Both
chr	69	1631500	1631419	View	Tyr	GTA	0	0	64.08	32.70	31.38	Both

chr	13	563864	563936	View	Val	TAC	0	0	86.40	70.37	16.03	Both
chr	23	1680912	1680840	View	Val	TAC	0	0	86.40	70.37	16.03	Both
chr	50	1666463	1666391	View	Val	TAC	0	0	86.40	70.37	16.03	Both

The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.