tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Sun May 18 04:39:02 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:         1
Seqs w/at least 1 hit:  1
Bases read:             207333000 (x2 for both strands)
Bases in tRNAs:         579756
tRNAs predicted:        6972
Av. tRNA length:        83
Script CPU time:        92.10 s
Scan CPU time:          133.11 s
Scan speed:             3115.2 Kbp/sec

First pass search(es) ended: Sun May 18 04:42:59 PDT 2008

Cove Stats:
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Candidate tRNAs read:     6972
Cove-confirmed tRNAs:     1573
Bases scanned by covels:  677364
% seq scanned by covels:  0.2 %
Script CPU time:          20.32 s
Cove CPU time:            531.25 s
Scan speed:               1275.0 bp/sec

Cove analysis of tRNAs ended: Sun May 18 05:02:50 PDT 2008

Summary
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Overall scan speed: 533826.8 bp/sec

tRNAs decoding Standard 20 AA:              1131
Selenocysteine tRNAs (TCA):                 5
Possible suppressor tRNAs (CTA,TTA):        1
tRNAs with undetermined/unknown isotypes:   39
Predicted pseudogenes:                      397
                                            -------
Total tRNAs:                                1573

tRNAs with introns:     	57

| Thr-GGT: 1 | Leu-TAG: 1 | Leu-CAA: 16 | Phe-GAA: 1 | Asn-ATT: 1 | Asp-ATC: 1 | Ile-GAT: 2 | Ile-TAT: 7 | Tyr-ATA: 2 | Tyr-GTA: 25 |

Isotype / Anticodon Counts:

Ala   : 52	  AGC: 34      GGC: 1       CGC: 7       TGC: 10    
Gly   : 133	  ACC:         GCC: 38      CCC: 25      TCC: 70    
Pro   : 75	  AGG: 11      GGG: 4       CGG: 8       TGG: 52    
Thr   : 65	  AGT: 32      GGT: 4       CGT: 11      TGT: 18    
Val   : 58	  AAC: 35      GAC:         CAC: 15      TAC: 8     
Ser   : 55	  AGA: 19      GGA:         CGA: 9       TGA: 13      ACT:         GCT: 14    
Arg   : 111	  ACG: 33      GCG:         CCG: 35      TCG: 17      CCT: 13      TCT: 13    
Leu   : 74	  AAG: 32      GAG:         CAG: 10      TAG: 10      CAA: 15      TAA: 7     
Phe   : 24	  AAA:         GAA: 24                              
Asn   : 34	  ATT:         GTT: 34                              
Lys   : 79	                            CTT: 53      TTT: 26    
Asp   : 38	  ATC: 1       GTC: 37                              
Glu   : 77	                            CTC: 40      TTC: 37    
His   : 26	  ATG: 1       GTG: 25                              
Gln   : 56	                            CTG: 13      TTG: 43    
Ile   : 65	  AAT: 36      GAT: 2                    TAT: 27    
Met   : 29	                            CAT: 29                 
Tyr   : 28	  ATA: 3       GTA: 25                              
Supres: 1	                            CTA: 1       TTA:       
Cys   : 23	  ACA: 3       GCA: 20                              
Trp   : 29	                            CCA: 29                 
SelCys: 5	                                         TCA: 5