tRNAscan-SE Analysis of the Helicobacter hepaticus 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.trna13 (1546239-1546314)	Length: 76 bp
Type: Ala	Anticodon: GGC at 34-36 (1546272-1546274)	Score: 83.42
Seq: GGGGTGTTAGCTCAGTTGGGAGAGCGCAACGCTGGCAGCGTTGAGGtCAGGGGTTCGAACCCCCTACACTCCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna19 (956593-956518)	Length: 76 bp
Type: Ala	Anticodon: TGC at 34-36 (956560-956558)	Score: 92.14
Seq: GGGGAATTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGtCAGCGGTTCGATCCCGCTATTCTCCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna9 (478741-478817)	Length: 77 bp
Type: Arg	Anticodon: CCT at 35-37 (478775-478777)	Score: 82.97
Seq: GTCCTCGTAGCTCAGCTGGAtAGAGCACACGATTCCTAATCGTGAGGtCATGCGTTCGAATCGCATCGGGGACACCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna10 (753860-753936)	Length: 77 bp
Type: Arg	Anticodon: GCG at 35-37 (753894-753896)	Score: 68.00
Seq: GTGCTCGTAGCTCAGCTGAAtAGAGCAACAGGTTGCGGTCCTGTAGGtCGGGGGTTTGAATCCCTCCGAGCACGCCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna3 (37039-37115)	Length: 77 bp
Type: Arg	Anticodon: TCG at 35-37 (37073-37075)	Score: 78.06
Seq: GCGTTCGTAGCTCAATTGGAtAGAGCACCAGACTTCGGATCTGGGGGtTAGGGGTTCGACTCCCTTCGGGCGTGCCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna7 (202750-202826)	Length: 77 bp
Type: Arg	Anticodon: TCT at 35-37 (202784-202786)	Score: 91.58
Seq: GCGCTCATAGCTCAGCTGGAtAGAGCAACGGCCTTCTAAGCCGTAGGtCAGAGGTTCGAATCCTCTTGGGCGTACCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna8 (438133-438207)	Length: 75 bp
Type: Asn	Anticodon: GTT at 33-35 (438165-438167)	Score: 84.95
Seq: TCCGGATTAGCTCAGCGGTAGAGTAGGTGGCTGTTAACCACTTGGtCGCAGGTTCGAATCCTGCATCCGGAGCCA
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna24 (891491-891415)	Length: 77 bp
Type: Asp	Anticodon: GTC at 35-37 (891457-891455)	Score: 94.25
Seq: GGAGCGGTAGTTCAGCTGGTtAGAATACCTGCCTGTCACGCAGGGGGtCGCGGGTTCGAGCCCCGTCCGCTCCGCCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna31 (362655-362581)	Length: 75 bp
Type: Cys	Anticodon: GCA at 33-35 (362623-362621)	Score: 74.84
Seq: GGCGACATAGCCAAGTGGTAAGGCACGGGCCTGCAAAGCCTTGATtCCCCAGTTCGAATCTGGGTGTCGCCTCCA
Str: >>>>>>>..>>>.........<<<..>>>>.......<<<<......>>>>>.......<<<<<<<<<<<<....

chr.trna5 (202423-202497)	Length: 75 bp
Type: Gln	Anticodon: TTG at 33-35 (202455-202457)	Score: 74.17
Seq: TGGGGTATCGCCAAGCGGTAAGGCACCTGGTTTTGGTCCAGGCATtCAGAGGTTCGAATCCTTTTACCCCAGCCA
Str: >>>>>>>..>>>.........<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna22 (891709-891635)	Length: 75 bp
Type: Glu	Anticodon: TTC at 34-36 (891676-891674)	Score: 65.47
Seq: GGCCCCGTCATCTAGCGGTtAGGATACCACCCTTTCACGGTGGCTACAGGGGTTCGAGTCCCCTCGGGGTCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<....

chr.trna29 (362963-362889)	Length: 75 bp
Type: Gly	Anticodon: GCC at 33-35 (362931-362929)	Score: 88.04
Seq: GCGGGAGTAGCTCAGTGGTAGAGCACAACCTTGCCAAGGTTGGGGcCGCGGGTTCGATCCCCGTCTCCCGCTCCA
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna35 (361073-360997)	Length: 77 bp
Type: Gly	Anticodon: TCC at 35-37 (361039-361037)	Score: 97.38
Seq: GCGGGAATAGCTCAGTTGGCtAGAGCATCAGCCTTCCAAGCTGAGGGtCGCGGGTTCGAGCCCCGTTTCCCGCTCCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna2 (36945-37021)	Length: 77 bp
Type: His	Anticodon: GTG at 35-37 (36979-36981)	Score: 77.19
Seq: GTGGGTGTAGCTCAGTTGGTtAGAGCATCAGGTTGTGGCTCTGAGGGtCGTGGGTTCGAGCCCCATCTCCCACCCCA
Str: >>>>>.>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<.<<<<<....

chr.trna18 (956712-956636)	Length: 77 bp
Type: Ile	Anticodon: GAT at 35-37 (956678-956676)	Score: 94.06
Seq: GGGCTTATAGCTCAGGTGGTtAGAGCGCACCCCTGATAAGGGTGAGGtCGGAGGTTCAAGTCCTCCTAAGCCCACCA
Str: >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna28 (571617-571531)	Length: 87 bp
Type: Leu	Anticodon: CAA at 35-37 (571583-571581)	Score: 72.58
Seq: GCCGGAGTGGTGAAACTGGTaGACGCGCTAGACTCAAAATCTAGTAGGGGCAACCCTGTGTCGGTTCGAGTCCGACCTTCGGCACCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>....<<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna27 (571757-571673)	Length: 85 bp
Type: Leu	Anticodon: GAG at 35-37 (571723-571721)	Score: 55.92
Seq: GCGCTGGTGGTGGAATTGGTaGACACACCATCTTGAGGGGGTGGCGGGGCGaCCCGTGCGAGTTCAAGTCTCGCTCAGCGCACCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>><.<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna30 (362812-362725)	Length: 88 bp
Type: Leu	Anticodon: TAA at 35-37 (362778-362776)	Score: 65.86
Seq: GCCCGGGTGGTGAAATTGGTaGACACAAGGGACTTAAAATCCCTCGGACATTGCGTCTGTACCGGTTCAAGTCCGGTCTCGGGCACCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.>.<.<<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna26 (585298-585214)	Length: 85 bp
Type: Leu	Anticodon: TAG at 35-37 (585264-585262)	Score: 81.93
Seq: GCGGGAATGGCGAAATTGGCaGACGCACCAGACTTAGGATCTGGCGCCGCAAGGCGTGGAGGTTCAAGTCCTCTTTCCCGCACCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>....<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna11 (871458-871533)	Length: 76 bp
Type: Lys	Anticodon: CTT at 34-36 (871491-871493)	Score: 91.05
Seq: GGACGTGTAGCTCAGCTGGTAGAGCAACTGACTCTTAATCAGTGGGtCCAGAGTTCGATCCTCTGCGCGTCCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna21 (891799-891724)	Length: 76 bp
Type: Lys	Anticodon: TTT at 34-36 (891766-891764)	Score: 89.70
Seq: GACCCGTTAGCTCAGTTGGTAGAGCAATTCCCTTTTAAGGAATGGGcCGTTGGTTCGAATCCAACACGGGTCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna20 (937936-937859)	Length: 78 bp
Type: Met	Anticodon: CAT at 36-38 (937901-937899)	Score: 85.54
Seq: GTCAAAGTAGCTCAGCTGGTttAGAGCGCTGGTCTCATAAGCCGGAGGtCGGGGGTTCAAGTCCCCCCTTTGACACCA
Str: >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna6 (202580-202656)	Length: 77 bp
Type: Met	Anticodon: CAT at 35-37 (202614-202616)	Score: 86.14
Seq: CGCGGGATAGAGCAGTCcGGTAGCTCGTTGGGCTCATAACCCAAAGGtCGGGGGTTCAAATCCCTCTCCCGCAACCA
Str: .>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<.....

chr.trna25 (758332-758256)	Length: 77 bp
Type: Met	Anticodon: CAT at 35-37 (758298-758296)	Score: 91.86
Seq: GGACCTTTAGCTCAGCTGGTcAGAGCACTCGGCTCATAACCGATTGGtCGCAGGTTCAAATCCTGCAAGGTCCACCA
Str: >>>>>>>..>>>>.........<<<<..>>>>.......<<<<......>>>>>.......<<<<<<<<<<<<....

chr.trna17 (1128081-1128006)	Length: 76 bp
Type: Phe	Anticodon: GAA at 34-36 (1128048-1128046)	Score: 86.53
Seq: GGCTCGATAGCTCAGTCGGTAGAGCAGGAGACTGAAAATCTCCGTGtCGGTGGTTCGATTCCGCCTCGAGCCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna4 (138302-138379)	Length: 78 bp
Type: Pro	Anticodon: GGG at 36-38 (138337-138339)	Score: 67.71
Seq: CGGAGTATAGCGCAGCCtGATtAGCGCGCACCCTTGGGGTGGGTGAGGtCGTGGGTTTGAATCCCGCTACTCCGACCA
Str: >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna1 (36848-36925)	Length: 78 bp
Type: Pro	Anticodon: TGG at 36-38 (36883-36885)	Score: 92.94
Seq: CGGGGCGTAGCGCAGTCtGGTtAGCGCACTTGGTTTGGGACCAAGGGGtCGAAGGTTCGAATCCTTTCGCCCCGACCA
Str: >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna12 (899541-899617)	Length: 77 bp
Type: Glu	Anticodon: TTC at 36-38 (899576-899578)	Score: 45.59
Seq: GACCCTTTCATCTAGCTGGCcaAGGATATCACCCTTTCTCGGTGAAAACGGAAGTTCAAATCTTTCAAGGGTCGCCA
Str: >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<....

chr.trna16 (1243580-1243490)	Length: 91 bp
Type: Ser	Anticodon: GCT at 36-38 (1243545-1243543)	Score: 72.15
Seq: GGACAGGTGGGTGAGTTGGCtgAAACCACATCCCTGCTAAGGATGCAtAGCCGCAAGGTTAtCGAGGGTTCGAATCCCTCCCTGTCCGCCA
Str: >>>>>>>..>>>............<<<.>>>>>.......<<<<<...>>>>....<<<<...>>>>>.......<<<<<<<<<<<<....

chr.trna15 (1422525-1422438)	Length: 88 bp
Type: Ser	Anticodon: GGA at 35-37 (1422491-1422489)	Score: 65.33
Seq: AGAGAGGTGTCCGAGTGGTtgAAGGAGCACGCCTGGAACGCGTGTAAAGTGCAAGCTTTCGAGGGTTCGAATCCCTTCCTCTCTGCCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>>....<<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna32 (362546-362459)	Length: 88 bp
Type: Ser	Anticodon: TGA at 35-37 (362512-362510)	Score: 71.30
Seq: CGGGAGATGGCTGAGCGGTtgAAAGCGGCGGTCTTGAAAACCGTTGAGGGTAACACCTCCGGGGGTTCGAATCCCTCTCTCCCGGCCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>......<<<..>>>>>.......<<<<<<<<<<<<....

chr.trna36 (360937-360863)	Length: 75 bp
Type: Thr	Anticodon: GGT at 33-35 (360905-360903)	Score: 87.32
Seq: GCCCATATAGCTCAGCGGCAGAGCACTTCCTTGGTAAGGAAGAGGtCGGCGGTTCAATCCCGCTTATGGGCTCCA
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna33 (361349-361274)	Length: 76 bp
Type: Thr	Anticodon: TGT at 34-36 (361316-361314)	Score: 97.73
Seq: GCTGGTTTAGCTCAGTTGGTAGAGCATCTGCCTTGTAAGCAGAGGGtCGGGGGTTCAAGTCCCTTAACCAGCTCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna37 (359378-359303)	Length: 76 bp
Type: Trp	Anticodon: CCA at 34-36 (359345-359343)	Score: 75.76
Seq: AGGTCAGTAGCTCCAATGGTAGAGCGTCGGTCTCCAAAACCGAGTGtTGGGGGTTCGAGTCCCTCCTGACCTGCCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna34 (361219-361135)	Length: 85 bp
Type: Tyr	Anticodon: GTA at 35-37 (361185-361183)	Score: 61.75
Seq: GGTGAGTTACTCAAGTGGCcaACGAGGGCAGACTGTAAATCTGCTGTCTCCGACTtCCGTGGTTCGAATCCACGACTCACCACCA
Str: >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>...<<<...>>>>>.......<<<<<<<<<<<<....

chr.trna14 (1704004-1703929)	Length: 76 bp
Type: Val	Anticodon: GAC at 34-36 (1703971-1703969)	Score: 86.92
Seq: GGTCGCGTAGCTCAGTTGGTAGAGCACTACCTTGACATGGTAGTGGtCGCTGGTTCAAGTCCAGTCGTGGCCACCA
Str: >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<....

chr.trna23 (891596-891521)	Length: 76 bp
Type: Val	Anticodon: TAC at 34-36 (891563-891561)	Score: 93.87
Seq: GGTCGCTTAGCTCAGTTGGTAGAGCGCCACCCTTACAAGGTGGATGtCATAAGTTCGAGTCTTATAGCGACCACCA
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.