tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Sun May 18 11:09:25 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:         52
Seqs w/at least 1 hit:  51
Bases read:             3414520105 (x2 for both strands)
Bases in tRNAs:         4234431
tRNAs predicted:        33804
Av. tRNA length:        125
Script CPU time:        628.60 s
Scan CPU time:          2137.35 s
Scan speed:             3195.1 Kbp/sec

First pass search(es) ended: Sun May 18 12:00:08 PDT 2008

Cove Stats:
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Candidate tRNAs read:     33804
Cove-confirmed tRNAs:     654
Bases scanned by covels:  4707687
% seq scanned by covels:  0.1 %
Script CPU time:          95.27 s
Cove CPU time:            5429.21 s
Scan speed:               867.1 bp/sec

Cove analysis of tRNAs ended: Sun May 18 14:08:17 PDT 2008

Summary
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Overall scan speed: 823725.7 bp/sec

tRNAs decoding Standard 20 AA:              530
Selenocysteine tRNAs (TCA):                 2
Possible suppressor tRNAs (CTA,TTA):        2
tRNAs with undetermined/unknown isotypes:   3
Predicted pseudogenes:                      117
                                            -------
Total tRNAs:                                654

tRNAs with introns:     	37

| Pro-AGG: 1 | Arg-TCG: 1 | Arg-TCT: 7 | Leu-AAG: 1 | Leu-CAA: 5 | Ile-TAT: 6 | Tyr-ATA: 1 | Tyr-GTA: 15 |

Isotype / Anticodon Counts:

Ala   : 35	  AGC: 22      GGC:         CGC: 4       TGC: 9     
Gly   : 31	  ACC:         GCC: 13      CCC: 10      TCC: 8     
Pro   : 25	  AGG: 13      GGG:         CGG: 4       TGG: 8     
Thr   : 23	  AGT: 12      GGT:         CGT: 6       TGT: 5     
Val   : 33	  AAC: 9       GAC:         CAC: 17      TAC: 7     
Ser   : 30	  AGA: 11      GGA:         CGA: 6       TGA: 5       ACT:         GCT: 8     
Arg   : 36	  ACG: 7       GCG:         CCG: 7       TCG: 6       CCT: 8       TCT: 8     
Leu   : 39	  AAG: 11      GAG:         CAG: 12      TAG: 3       CAA: 5       TAA: 8     
Phe   : 15	  AAA:         GAA: 15                              
Asn   : 38	  ATT: 2       GTT: 36                              
Lys   : 41	                            CTT: 25      TTT: 16    
Asp   : 12	  ATC:         GTC: 12                              
Glu   : 35	                            CTC: 13      TTC: 22    
His   : 11	  ATG:         GTG: 11                              
Gln   : 28	                            CTG: 19      TTG: 9     
Ile   : 24	  AAT: 15      GAT: 3                    TAT: 6     
Met   : 20	                            CAT: 20                 
Tyr   : 18	  ATA: 1       GTA: 17                              
Supres: 2	                            CTA: 1       TTA: 1     
Cys   : 29	  ACA:         GCA: 29                              
Trp   : 7	                            CCA: 7                  
SelCys: 2	                                         TCA: 2