tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Sun Jan 25 21:16:35 PST 2009

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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:         3304
Seqs w/at least 1 hit:  527
Bases read:             738540932 (x2 for both strands)
Bases in tRNAs:         933338
tRNAs predicted:        8783
Av. tRNA length:        106
Script CPU time:        110.77 s
Scan CPU time:          504.51 s
Scan speed:             2927.8 Kbp/sec

First pass search(es) ended: Sun Jan 25 21:28:41 PST 2009

Cove Stats:
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Candidate tRNAs read:     8783
Cove-confirmed tRNAs:     649
Bases scanned by covels:  1056277
% seq scanned by covels:  0.1 %
Script CPU time:          19.33 s
Cove CPU time:            951.91 s
Scan speed:               1109.6 bp/sec

Cove analysis of tRNAs ended: Sun Jan 25 21:47:57 PST 2009

Summary
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Overall scan speed: 931020.0 bp/sec

tRNAs decoding Standard 20 AA:              577
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        1
tRNAs with undetermined/unknown isotypes:   8
Predicted pseudogenes:                      62
                                            -------
Total tRNAs:                                649

tRNAs with introns:     	32

| Ser-TGA: 1 | Leu-CAG: 1 | Met-CAT: 17 | Tyr-ATA: 1 | Tyr-GTA: 12 |

Isotype / Anticodon Counts:

Ala   : 42	  AGC: 18      GGC:         CGC: 11      TGC: 13    
Gly   : 40	  ACC:         GCC: 24      CCC: 6       TCC: 10    
Pro   : 32	  AGG: 14      GGG:         CGG: 7       TGG: 11    
Thr   : 29	  AGT: 12      GGT: 2       CGT: 6       TGT: 9     
Val   : 32	  AAC: 16      GAC: 2       CAC: 10      TAC: 4     
Ser   : 45	  AGA: 11      GGA: 3       CGA: 6       TGA: 12      ACT:         GCT: 13    
Arg   : 43	  ACG: 15      GCG:         CCG: 7       TCG: 4       CCT: 10      TCT: 7     
Leu   : 48	  AAG: 15      GAG:         CAG: 11      TAG: 9       CAA: 9       TAA: 4     
Phe   : 20	  AAA:         GAA: 20                              
Asn   : 17	  ATT: 1       GTT: 16                              
Lys   : 27	                            CTT: 18      TTT: 9     
Asp   : 26	  ATC: 2       GTC: 24                              
Glu   : 36	                            CTC: 23      TTC: 13    
His   : 16	  ATG: 1       GTG: 15                              
Gln   : 24	                            CTG: 13      TTG: 11    
Ile   : 22	  AAT: 17      GAT:                      TAT: 5     
Met   : 37	                            CAT: 37                 
Tyr   : 15	  ATA: 1       GTA: 14                              
Supres: 1	                            CTA: 1       TTA:       
Cys   : 13	  ACA:         GCA: 13                              
Trp   : 13	                            CCA: 13                 
SelCys: 1	                                         TCA: 1