tRNAscan-SE Analysis of the Chlamydophila caviae 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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Predicted tRNA Secondary Structures

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chr.trna38 (5284-5212)	Length: 73 bp
Type: Ala	Anticodon: GGC at 34-36 (5251-5249)	Score: 75.26
Seq: GGGGTATTAGCTCAATTGGTAGAGCGCAACAATGGCATTGTTGAGGtCAGCGGTTCGATTCCGCTATGCTCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna25 (674053-673981)	Length: 73 bp
Type: Ala	Anticodon: TGC at 34-36 (674020-674018)	Score: 78.02
Seq: GGGGACTTAGCTTAGCTGGTAGAGCGTCTGATTTGCATTCAGAAGGtCAGGAGTTCGACTCTCCTAGTCTCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna17 (1138112-1138040)	Length: 73 bp
Type: Arg	Anticodon: ACG at 34-36 (1138079-1138077)	Score: 76.45
Seq: GCACCAGTAGCTCAGTGGAtAGAGTGCCTGGCTACGAACCAGGTGGtCAGAGGTTCAAATCCTCTCTGGTGCG
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna30 (428305-428232)	Length: 74 bp
Type: Arg	Anticodon: CCT at 35-37 (428271-428269)	Score: 61.41
Seq: GTCCTCGTAGCTCAGTAGGAtAGAGCGGTTGCCTCCTAAGCAGCAGGcCATGCGTTCGAATCGCATCGAGGACG
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna33 (162141-162068)	Length: 74 bp
Type: Arg	Anticodon: TCG at 35-37 (162107-162105)	Score: 75.50
Seq: GCACCGATAGCTCAATCGGAtAGAGTACCTGGCTTCGAACCAGGTGGtTAGAGGTTCGAGCCCTCTTCGGTGCG
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna1 (31667-31739)	Length: 73 bp
Type: Arg	Anticodon: TCT at 34-36 (31700-31702)	Score: 85.99
Seq: GGACCGATAGCTCAGTGGAtAGAGCATTCGCCTTCTAAGCGAATGGtCGCAGGTTCGAATCCTGCTCGGTCCG
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna10 (738275-738346)	Length: 72 bp
Type: Asn	Anticodon: GTT at 33-35 (738307-738309)	Score: 75.21
Seq: TCCGGAGTAGCTCAGCGGTAGAGCAGTGGACTGTTAATCCATTGGtCGTTGGTTCGAACCCATCCTCCGGAG
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>.>>>.......<<<.<<<<<<<<.

chr.trna28 (590195-590122)	Length: 74 bp
Type: Asp	Anticodon: GTC at 35-37 (590161-590159)	Score: 76.40
Seq: GCGGGAGTAGTTCAATTGGTtAGAGCACCGCCCTGTCAAGGCGGAAGtTGCGGGTTCAAGCCCCGTCTCTCGCG
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna13 (992926-992996)	Length: 71 bp
Type: Cys	Anticodon: GCA at 33-35 (992958-992960)	Score: 66.18
Seq: GGTGGCATAGCCAAGCGGTAAGGCCGAGGCCTGCAAAGCCTCTAtCCCCGGTTCGATTCCGGGTGCCACCT
Str: >>>>>>>..>>>.........<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<.

chr.trna18 (943470-943399)	Length: 72 bp
Type: Gln	Anticodon: TTG at 33-35 (943438-943436)	Score: 65.58
Seq: TGGGGTGTAGCCAAGCGGTAAGGCAGCGGTTTTTGGTACCGTGCAtCGGAGGTTCGAATCCTTTCACCCCAA
Str: >>>>>>>..>>>.........<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna36 (54571-54497)	Length: 75 bp
Type: Glu	Anticodon: TTC at 37-39 (54535-54533)	Score: 50.11
Seq: GGCCCCATCGTCTAGCCtGGCccAGGACATCGGATTTTCATTCCGGTAACAGGGGTTCGAATCCCCTTGGGGTCA
Str: >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<.

chr.trna15 (1064489-1064560)	Length: 72 bp
Type: Gly	Anticodon: GCC at 33-35 (1064521-1064523)	Score: 75.06
Seq: GCGGGTGTAGCTCAGTGGTAGAGCGCCACGTTGCCAACGTGAAGGtCGTGAGTTCAAGCCTCATCACCCGCT
Str: >>>>>>>..>>>>.......<<<<..>>>>.......<<<<......>>>>>.......<<<<<<<<<<<<.

chr.trna35 (57805-57735)	Length: 71 bp
Type: Gly	Anticodon: TCC at 33-35 (57773-57771)	Score: 69.63
Seq: GCGCCCGTAGCTCAATGGTAGAGCTGTAGCCTTCCAAGCTACCGGTGTCAGTTCGATTCTGATCGGGCGCT
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<.

chr.trna14 (1026352-1026425)	Length: 74 bp
Type: His	Anticodon: GTG at 35-37 (1026386-1026388)	Score: 80.09
Seq: GCGAACGTAGCTCAGTTGGTtAGAGCGTCGGATTGTGGTTCCGAAGGtCGCGGGTTCAAGCCCCGTCGTTCGCC
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna26 (673975-673902)	Length: 74 bp
Type: Ile	Anticodon: GAT at 35-37 (673941-673939)	Score: 83.91
Seq: GCGGTTATAGCTCAGTTGGTtAGAGCGCGACACTGATAATGTCGAGGtCCCAAGTTCAAGTCTTGGTAACCGCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna32 (168159-168077)	Length: 83 bp
Type: Leu	Anticodon: CAA at 34-36 (168126-168124)	Score: 64.83
Seq: GCCGGCGTGGCGGAATGGTaGACGCGGTAGACTCAAAATCTACTCTTAGCAATAAGGTGTTGGTTCGAGTCCAATCGCCGGCA
Str: >>>>>>>..>>>..........<<<.>>>>>.......<<<<<.>>>>....<<<<..>>>>>.......<<<<<<<<<<<<.

chr.trna34 (98416-98333)	Length: 84 bp
Type: Leu	Anticodon: CAG at 35-37 (98382-98380)	Score: 57.86
Seq: GCAGCTATGGCGGAACCGGTaGACGCGCTAGATTCAGGTTCTAGTGAGCTTAGGCTCaTGGAAGTTCAAGTCTTCTTAGCTGCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>....<<<...>>>>>.......<<<<<<<<<<<<.

chr.trna5 (159272-159353)	Length: 82 bp
Type: Leu	Anticodon: GAG at 35-37 (159306-159308)	Score: 51.25
Seq: GCGGAAGTGGCGGAATTGGTaTACGCGCTATCTTGAGGTGGTAGTGGAGCTTTCCtTAGGGGTTCGAGTCCCCTCTTTCGCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>..<<<...>>>>>.......<<<<<<<<<<<<.

chr.trna3 (122375-122457)	Length: 83 bp
Type: Leu	Anticodon: TAA at 34-36 (122408-122410)	Score: 61.02
Seq: GCTCAGATGGTGGAATGGTaGACACTAGGGACTTAAAATCCCTTGGGCGCAAGCCCGTGCAAGTTCGAGTCTTGTTCTGAGCA
Str: >>>>>>>..>>>..........<<<.>>>>>.......<<<<<.>>>>....<<<<..>>>>>.......<<<<<<<<<<<<.

chr.trna20 (845065-844984)	Length: 82 bp
Type: Leu	Anticodon: TAG at 35-37 (845031-845029)	Score: 62.58
Seq: GCCCAGGTGGTGAAATTGGTaGACACGCTGGATTTAGGATCCAGTGCTTCGCGGCATGTAGGTTCAAGTCCTATCCTGGGCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<....>>><<<...>>>>>.......<<<<<<<<<<<<.

chr.trna37 (54470-54398)	Length: 73 bp
Type: Lys	Anticodon: TTT at 34-36 (54437-54435)	Score: 90.95
Seq: GGGCCTTTAGCTCAGCGGTtAGAGCACCTCACTTTTAATGAGGGGGtCGAAGGTTCAAATCCTTCAAGGCCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna23 (694814-694742)	Length: 73 bp
Type: Met	Anticodon: CAT at 34-36 (694781-694779)	Score: 71.20
Seq: CGCGGGATAGAGTAGTGGTcATCTCGTTGGGCTCATAACCCAAAGGtCGGAGGTTCGAATCCTTCTCCCGCTA
Str: .>>>>>>..>>>..........<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<..

chr.trna24 (694721-694648)	Length: 74 bp
Type: Met	Anticodon: CAT at 35-37 (694687-694685)	Score: 73.33
Seq: GGCGGTATAGCTCAGATGGTtAGAGCAGCAGAATCATAATCTGCGAGtCGTTGGTTCAAGTCCGACTACCGCTA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna11 (809848-809920)	Length: 73 bp
Type: Met	Anticodon: CAT at 34-36 (809881-809883)	Score: 83.78
Seq: GGGGCAGTAGCTCAGCGGTtAGAGCCACGGACTCATAACCCGTTGGtCACAGGTTCGAATCCTGTCTGCCCCA
Str: >>>>>>>..>>>>........<<<<.>>>>.........<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna6 (209996-210068)	Length: 73 bp
Type: Phe	Anticodon: GAA at 34-36 (210029-210031)	Score: 74.36
Seq: GGCTGGATAGCTCAGTTGGTAGAGCAGAGGATTGAAGATCCTTGTGtCGTCGGTTCGACCCCGGCTCCGGCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna16 (1171209-1171136)	Length: 74 bp
Type: Pro	Anticodon: GGG at 35-37 (1171175-1171173)	Score: 67.73
Seq: CTGGGTGTAGCGCAGCCtGGTAGCGCACTTGCATGGGGTGCAAGGGGgCGGAGGTTCAAATCCTCTCACCCAGA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna29 (482178-482104)	Length: 75 bp
Type: Pro	Anticodon: TGG at 36-38 (482143-482141)	Score: 78.14
Seq: CGGAGTATAGCGCAGCCtGGTtAGCGCGGTTGCTTTGGGAGCAATAGGtCGGGGGTTCGAATCCCTCTACTCCGA
Str: >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna31 (350084-349998)	Length: 87 bp
Type: Ser	Anticodon: CGA at 35-37 (350050-350048)	Score: 61.89
Seq: GGAAGAGTGGCAGAGTGGTcgAATGCATCTGATTCGAAATCAGAAGTTCTCTTACAGGAACCGGGGGTTCGAATCCCTTCTCTTCCG
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>......<<<<<.>>>>>.......<<<<<<<<<<<<.

chr.trna4 (130116-130203)	Length: 88 bp
Type: Ser	Anticodon: GCT at 35-37 (130150-130152)	Score: 56.02
Seq: GGAAAGATGACTGAGTGGTcgAAAGTACGTCCCTGCTAAGGACGCGTACCCCTAAAGGGTACCGAGGGTTCGAATCCCTCTCTTTCCG
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>>.....<<<<<<.>>>>>.......<<<<<<<<<<<<.

chr.trna7 (214462-214551)	Length: 90 bp
Type: Ser	Anticodon: GGA at 35-37 (214496-214498)	Score: 63.10
Seq: GGAGAGGTGTCCGAGTGGCttAAGGAGCACGCTTGGAAAGCGTGTGTGCGTTAACGCGTACCGAGGGTTCGAATCCCTCTCTCTCCGTCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>>....<<<<<<.>>>>>.......<<<<<<<<<<<<....

chr.trna19 (879184-879100)	Length: 85 bp
Type: Ser	Anticodon: TGA at 35-37 (879150-879148)	Score: 70.17
Seq: GGAAGAATGGCAGAGCGGTttAATGCACCTGTCTTGAAAACAGGAGACCTGAAAGGGTCCGGGGGTTCGAATCCCTCTTCTTCCG
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>>....<<<<..>>>>>.......<<<<<<<<<<<<.

chr.trna2 (52238-52310)	Length: 73 bp
Type: Thr	Anticodon: CGT at 34-36 (52271-52273)	Score: 76.52
Seq: GCCTAAATAGCTCAGTTGGTAGAGCAACGCATTCGTAACGCGTAGGtCGTCGGTTCGATCCCGGCTTTGGGCA
Str: >>>>>>>..>>>>........<<<<.>>>>.........<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna21 (807750-807679)	Length: 72 bp
Type: Thr	Anticodon: GGT at 33-35 (807718-807716)	Score: 82.61
Seq: GCCCAGATAGCTCAGTGGTAGAGCACTTGCATGGTAAGCAAGCGGtCGTAGGTTCAATTCCTATTCTGGGCA
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna8 (594018-594090)	Length: 73 bp
Type: Thr	Anticodon: TGT at 34-36 (594051-594053)	Score: 81.03
Seq: GCTGGAGTAGCTCAATTGGCAGAGCATTCGATTTGTAATCGAACGGtTGAGGGTTCAAGTCCTTTCTCCAGCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna22 (806398-806326)	Length: 73 bp
Type: Trp	Anticodon: CCA at 34-36 (806365-806363)	Score: 73.32
Seq: GGGTGTGTAGCTTAGCTGGTAGAGCAGTGGCCTCCAAAGCCGCCGGtCAGGGGTTCGACTCCCTTCGCACCCG
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna9 (594097-594179)	Length: 83 bp
Type: Tyr	Anticodon: GTA at 35-37 (594131-594133)	Score: 56.66
Seq: GGGGGTGTCGCATAGCGGTcaATTGCATCGGACTGTAAATCCGACTCCTTACGGATaCGTTGGTTCAAATCCAGCCACCCCCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>....<<<...>>>>>.......<<<<<<<<<<<<.

chr.trna12 (883805-883878)	Length: 74 bp
Type: Val	Anticodon: GAC at 35-37 (883839-883841)	Score: 72.25
Seq: GGGGTATTAGCTCAGTTGGTtAGAGCGTCACGTTGACATCGTGAAGGtCAGCTGTTCAAGTCAGCTATATCCCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr.trna27 (590271-590199)	Length: 73 bp
Type: Val	Anticodon: TAC at 34-36 (590238-590236)	Score: 78.56
Seq: GGATGCGTAGCTCAGCGGTtAGAGCACCTGTCTTACACACAGGGGGtCATAGGTTCAAATCCTGTCGTGTCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

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.