tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Thu Jul 17 22:06:23 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:         7
Seqs w/at least 1 hit:  7
Bases read:             10729447 (x2 for both strands)
Bases in tRNAs:         24240
tRNAs predicted:        262
Av. tRNA length:        92
Script CPU time:        1.55 s
Scan CPU time:          7.48 s
Scan speed:             2868.8 Kbp/sec

First pass search(es) ended: Thu Jul 17 22:06:33 PDT 2008

Cove Stats:
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Candidate tRNAs read:     262
Cove-confirmed tRNAs:     183
Bases scanned by covels:  27908
% seq scanned by covels:  0.1 %
Script CPU time:          0.74 s
Cove CPU time:            32.70 s
Scan speed:               853.5 bp/sec

Cove analysis of tRNAs ended: Thu Jul 17 22:07:24 PDT 2008

Summary
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Overall scan speed: 505271.8 bp/sec

tRNAs decoding Standard 20 AA:              175
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      7
                                            -------
Total tRNAs:                                183

tRNAs with introns:     	39

| Gly-TCC: 2 | Pro-TGG: 7 | Ser-CGA: 1 | Ser-GCT: 2 | Arg-ACG: 3 | Leu-TAG: 2 | Leu-CAA: 7 | Lys-TTT: 4 | Gln-CTG: 1 | Ile-TAT: 1 | Tyr-GTA: 5 | Trp-CCA: 4 |

Isotype / Anticodon Counts:

Ala   : 11	  AGC: 7       GGC:         CGC:         TGC: 4     
Gly   : 10	  ACC:         GCC: 7       CCC: 1       TCC: 2     
Pro   : 8	  AGG: 1       GGG:         CGG:         TGG: 7     
Thr   : 10	  AGT: 6       GGT:         CGT: 1       TGT: 3     
Val   : 11	  AAC: 7       GAC:         CAC: 2       TAC: 2     
Ser   : 12	  AGA: 6       GGA:         CGA: 1       TGA: 3       ACT:         GCT: 2     
Arg   : 13	  ACG: 3       GCG:         CCG: 1       TCG:         CCT: 1       TCT: 8     
Leu   : 14	  AAG:         GAG: 1       CAG:         TAG: 2       CAA: 7       TAA: 4     
Phe   : 6	  AAA:         GAA: 6                               
Asn   : 7	  ATT:         GTT: 7                               
Lys   : 14	                            CTT: 9       TTT: 5     
Asp   : 8	  ATC:         GTC: 8                               
Glu   : 10	                            CTC: 2       TTC: 8     
His   : 5	  ATG:         GTG: 5                               
Gln   : 7	                            CTG: 1       TTG: 6     
Ile   : 9	  AAT: 7       GAT: 1                    TAT: 1     
Met   : 7	                            CAT: 7                  
Tyr   : 5	  ATA:         GTA: 5                               
Supres: 0	                            CTA:         TTA:       
Cys   : 4	  ACA:         GCA: 4                               
Trp   : 4	                            CCA: 4                  
SelCys: 1	                                         TCA: 1