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| tRNAscan-SE Run Options & Statistics |
tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Sun Aug 17 03:58:14 PDT 2008
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Search Mode: Eukaryotic
Searching with: tRNAscan + EufindtRNA -> Cove
Covariance model: TRNA2-euk.cm
tRNAscan parameters: Strict
EufindtRNA parameters: Relaxed (Int Cutoff= -32.1)
Reporting HMM/2' structure score breakdown
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read: 15
Seqs w/at least 1 hit: 13
Bases read: 22866202 (x2 for both strands)
Bases in tRNAs: 5939
tRNAs predicted: 68
Av. tRNA length: 87
Script CPU time: 2.75 s
Scan CPU time: 10.45 s
Scan speed: 4376.3 Kbp/sec
First pass search(es) ended: Sun Aug 17 03:58:28 PDT 2008
Cove Stats:
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Candidate tRNAs read: 68
Cove-confirmed tRNAs: 35
Bases scanned by covels: 6891
% seq scanned by covels: 0.0 %
Script CPU time: 0.16 s
Cove CPU time: 6.81 s
Scan speed: 1011.9 bp/sec
Cove analysis of tRNAs ended: Sun Aug 17 03:58:40 PDT 2008
Summary
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Overall scan speed: 2267347.7 bp/sec
tRNAs decoding Standard 20 AA: 35
Selenocysteine tRNAs (TCA): 0
Possible suppressor tRNAs (CTA,TTA): 0
tRNAs with undetermined/unknown isotypes: 0
Predicted pseudogenes: 0
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Total tRNAs: 35
tRNAs with introns: 1
| Tyr-GTA: 1 |
Isotype / Anticodon Counts:
Ala : 3 AGC: 1 GGC: CGC: 1 TGC: 1
Gly : 1 ACC: GCC: CCC: TCC: 1
Pro : 3 AGG: 1 GGG: CGG: 1 TGG: 1
Thr : 2 AGT: GGT: CGT: 1 TGT: 1
Val : 3 AAC: 1 GAC: CAC: 1 TAC: 1
Ser : 4 AGA: 1 GGA: CGA: 1 TGA: 1 ACT: GCT: 1
Arg : 2 ACG: GCG: CCG: TCG: 1 CCT: TCT: 1
Leu : 5 AAG: 1 GAG: CAG: 1 TAG: 1 CAA: 1 TAA: 1
Phe : 1 AAA: GAA: 1
Asn : 1 ATT: GTT: 1
Lys : 0 CTT: TTT:
Asp : 1 ATC: GTC: 1
Glu : 2 CTC: 1 TTC: 1
His : 0 ATG: GTG:
Gln : 2 CTG: 1 TTG: 1
Ile : 2 AAT: 1 GAT: TAT: 1
Met : 2 CAT: 2
Tyr : 1 ATA: GTA: 1
Supres: 0 CTA: TTA:
Cys : 0 ACA: GCA:
Trp : 0 CCA:
SelCys: 0 TCA:
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