tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Fri Jul 25 13:43:17 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:         22012
Seqs w/at least 1 hit:  1214
Bases read:             485510911 (x2 for both strands)
Bases in tRNAs:         597312
tRNAs predicted:        6592
Av. tRNA length:        90
Script CPU time:        84.73 s
Scan CPU time:          305.46 s
Scan speed:             3178.9 Kbp/sec

First pass search(es) ended: Fri Jul 25 14:00:13 PDT 2008

Cove Stats:
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Candidate tRNAs read:     6592
Cove-confirmed tRNAs:     858
Bases scanned by covels:  689570
% seq scanned by covels:  0.1 %
Script CPU time:          14.97 s
Cove CPU time:            552.28 s
Scan speed:               1248.6 bp/sec

Cove analysis of tRNAs ended: Fri Jul 25 14:18:25 PDT 2008

Summary
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Overall scan speed: 1014185.6 bp/sec

tRNAs decoding Standard 20 AA:              809
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        1
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      47
                                            -------
Total tRNAs:                                858

tRNAs with introns:     	81

| Leu-AAG: 40 | Leu-TAA: 1 | Phe-AAA: 6 | Ile-AAT: 1 | Ile-TAT: 1 | Met-CAT: 14 | Tyr-GTA: 18 |

Isotype / Anticodon Counts:

Ala   : 48	  AGC: 22      GGC: 1       CGC: 6       TGC: 19    
Gly   : 56	  ACC:         GCC: 28      CCC: 7       TCC: 21    
Pro   : 53	  AGG: 18      GGG:         CGG: 5       TGG: 30    
Thr   : 36	  AGT: 15      GGT: 2       CGT: 6       TGT: 13    
Val   : 44	  AAC: 18      GAC: 6       CAC: 11      TAC: 9     
Ser   : 61	  AGA: 16      GGA: 5       CGA: 7       TGA: 13      ACT:         GCT: 20    
Arg   : 59	  ACG: 20      GCG:         CCG: 6       TCG: 9       CCT: 11      TCT: 13    
Leu   : 89	  AAG: 42      GAG:         CAG: 6       TAG: 12      CAA: 19      TAA: 10    
Phe   : 25	  AAA: 3       GAA: 22                              
Asn   : 32	  ATT:         GTT: 32                              
Lys   : 37	                            CTT: 18      TTT: 19    
Asp   : 37	  ATC:         GTC: 37                              
Glu   : 42	                            CTC: 24      TTC: 18    
His   : 19	  ATG:         GTG: 19                              
Gln   : 30	                            CTG: 11      TTG: 19    
Ile   : 38	  AAT: 23      GAT: 5                    TAT: 10    
Met   : 44	                            CAT: 44                 
Tyr   : 24	  ATA:         GTA: 24                              
Supres: 1	                            CTA:         TTA: 1     
Cys   : 16	  ACA:         GCA: 16                              
Trp   : 19	                            CCA: 19                 
SelCys: 1	                                         TCA: 1