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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: Thu Jul 17 22:02:24 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: 11
Seqs w/at least 1 hit: 11
Bases read: 2497519 (x2 for both strands)
Bases in tRNAs: 4320
tRNAs predicted: 51
Av. tRNA length: 84
Script CPU time: 0.32 s
Scan CPU time: 1.72 s
Scan speed: 2904.1 Kbp/sec
First pass search(es) ended: Thu Jul 17 22:02:26 PDT 2008
Cove Stats:
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Candidate tRNAs read: 51
Cove-confirmed tRNAs: 46
Bases scanned by covels: 5034
% seq scanned by covels: 0.1 %
Script CPU time: 0.13 s
Cove CPU time: 6.07 s
Scan speed: 829.3 bp/sec
Cove analysis of tRNAs ended: Thu Jul 17 22:02:37 PDT 2008
Summary
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Overall scan speed: 606193.9 bp/sec
tRNAs decoding Standard 20 AA: 46
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: 46
tRNAs with introns: 2
| Ile-TAT: 1 | Tyr-GTA: 1 |
Isotype / Anticodon Counts:
Ala : 3 AGC: 1 GGC: CGC: 1 TGC: 1
Gly : 3 ACC: GCC: 1 CCC: 1 TCC: 1
Pro : 3 AGG: 1 GGG: CGG: 1 TGG: 1
Thr : 3 AGT: 1 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 : 4 ACG: 1 GCG: CCG: TCG: 1 CCT: 1 TCT: 1
Leu : 5 AAG: 1 GAG: CAG: 1 TAG: 1 CAA: 1 TAA: 1
Phe : 1 AAA: GAA: 1
Asn : 2 ATT: GTT: 2
Lys : 2 CTT: 1 TTT: 1
Asp : 1 ATC: GTC: 1
Glu : 2 CTC: 1 TTC: 1
His : 1 ATG: GTG: 1
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 : 1 ACA: GCA: 1
Trp : 1 CCA: 1
SelCys: 0 TCA:
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