tRNAscan-SE Analysis of the Lactobacillus acidophilus NCFM 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	8	415602	415674	View	Ala	TGC	0	0	82.28	69.24	13.04	Both

chr	15	419417	419490	View	Arg	ACG	0	0	71.31	54.55	16.76	Eufind
chr	52	1904687	1904760	View	Arg	ACG	0	0	71.31	54.55	16.76	Eufind

chr	58	691621	691550	View	Arg	CCG	0	0	39.25	12.02	27.23	Both

chr	46	606705	606777	View	Arg	CCT	0	0	55.30	28.92	26.38	Both

chr	50	1326825	1326901	View	Arg	TCT	0	0	72.30	54.21	18.09	Both

chr	2	64127	64199	View	Asn	GTT	0	0	84.00	56.14	27.86	Both
chr	36	439119	439191	View	Asn	GTT	0	0	84.00	56.14	27.86	Both
chr	54	1627836	1627764	View	Asn	GTT	0	0	84.00	56.14	27.86	Both

chr	20	419853	419926	View	Asp	GTC	0	0	69.41	43.19	26.22	Both
chr	28	424244	424317	View	Asp	GTC	0	0	69.41	43.19	26.22	Both
chr	43	539031	539104	View	Asp	GTC	0	0	69.41	43.19	26.22	Both

chr	34	424748	424818	View	Cys	GCA	0	0	67.23	45.78	21.45	Both

chr	48	743116	743188	View	Gln	CTG	0	0	57.85	24.85	33.00	Both

chr	38	497137	497208	View	Gln	TTG	0	0	62.43	30.18	32.25	Both
chr	40	500767	500838	View	Gln	TTG	0	0	62.43	30.18	32.25	Both
chr	33	424653	424724	View	Gln	TTG	0	0	69.84	40.52	29.32	Both

chr	47	743039	743110	View	Glu	CTC	0	0	56.38	27.95	28.43	Both

chr	25	423962	424033	View	Glu	TTC	0	0	63.77	33.39	30.38	Both
chr	56	1626756	1626685	View	Glu	TTC	0	0	63.77	33.39	30.38	Both

chr	59	203559	203489	View	Gly	CCC	0	0	56.18	42.82	13.36	Both

chr	13	419239	419310	View	Gly	GCC	0	0	79.21	60.80	18.41	Both
chr	4	275354	275428	View	Gly	GCC	0	0	89.12	64.68	24.44	Both
chr	5	275551	275625	View	Gly	GCC	0	0	89.12	64.68	24.44	Both

chr	22	420025	420095	View	Gly	TCC	0	0	65.53	37.99	27.54	Both

chr	32	424573	424648	View	His	GTG	0	0	57.92	37.24	20.68	Both
chr	44	539111	539186	View	His	GTG	0	0	64.87	42.97	21.90	Both

chr	23	420101	420175	View	Ile	GAT	0	0	90.49	68.99	21.50	Both
chr	7	415471	415545	View	Ile	GAT	0	0	90.49	68.99	21.50	Both

chr	41	514446	514533	View	Leu	AAG	0	0	63.75	37.36	26.39	Both

chr	35	424856	424940	View	Leu	CAA	0	0	60.10	40.50	19.60	Both

chr	51	1597744	1597827	View	Leu	CAG	0	0	59.47	25.55	33.92	Both

chr	14	419323	419408	View	Leu	TAA	0	0	63.67	40.45	23.22	Both

chr	11	419050	419131	View	Leu	TAG	0	0	61.14	40.02	21.12	Both

chr	60	79776	79704	View	Lys	CTT	0	0	81.75	53.67	28.08	Both
chr	61	79528	79456	View	Lys	CTT	0	0	81.75	53.67	28.08	Both

chr	10	418965	419037	View	Lys	TTT	0	0	86.21	64.74	21.47	Both

chr	17	419600	419673	View	Met	CAT	0	0	73.74	65.23	8.51	Both
chr	19	419776	419849	View	Met	CAT	0	0	76.76	50.28	26.48	Both
chr	27	424167	424240	View	Met	CAT	0	0	76.76	50.28	26.48	Both
chr	18	419686	419759	View	Met	CAT	0	0	86.96	61.31	25.65	Both

chr	21	419933	420005	View	Phe	GAA	0	0	78.23	63.01	15.22	Both
chr	29	424324	424399	View	Phe	GAA	0	0	78.85	63.61	15.24	Both

chr	6	275660	275733	View	Pro	CGG	0	0	77.50	45.95	31.55	Both

chr	16	419496	419569	View	Pro	TGG	0	0	86.87	65.36	21.51	Both
chr	53	1904770	1904843	View	Pro	TGG	0	0	86.87	65.36	21.51	Both

chr	49	870429	870517	View	Ser	CGA	0	0	66.92	35.16	31.76	Both

chr	24	420178	420267	View	Ser	GCT	0	0	52.88	21.64	31.24	Both

chr	55	1627752	1627662	View	Ser	GGA	0	0	58.85	21.87	36.98	Both

chr	42	538938	539024	View	Ser	TGA	0	0	62.76	29.80	32.96	Both
chr	26	424071	424157	View	Ser	TGA	0	0	65.76	30.93	34.83	Both

chr	1	19474	19546	View	Thr	AGT	0	0	82.51	59.91	22.60	Both

chr	37	463546	463618	View	Thr	CGT	0	0	79.24	56.05	23.19	Both

chr	3	189006	189078	View	Thr	GGT	0	0	64.56	44.19	20.37	Both

chr	12	419156	419228	View	Thr	TGT	0	0	80.28	54.73	25.55	Both

chr	31	424490	424560	View	Trp	CCA	0	0	45.48	19.77	25.71	Eufind

chr	30	424404	424485	View	Tyr	GTA	0	0	63.66	41.04	22.62	Both
chr	39	500651	500732	View	Tyr	GTA	0	0	63.66	41.04	22.62	Both

chr	45	539191	539263	View	Val	TAC	0	0	86.40	70.37	16.03	Both
chr	57	1626679	1626607	View	Val	TAC	0	0	86.40	70.37	16.03	Both
chr	9	418890	418962	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.