tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Thu Jul 17 21:54:43 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:         14
Seqs w/at least 1 hit:  14
Bases read:             12300420 (x2 for both strands)
Bases in tRNAs:         27569
tRNAs predicted:        304
Av. tRNA length:        90
Script CPU time:        1.65 s
Scan CPU time:          8.11 s
Scan speed:             3033.4 Kbp/sec

First pass search(es) ended: Thu Jul 17 21:54:54 PDT 2008

Cove Stats:
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Candidate tRNAs read:     304
Cove-confirmed tRNAs:     227
Bases scanned by covels:  31825
% seq scanned by covels:  0.1 %
Script CPU time:          0.87 s
Cove CPU time:            36.94 s
Scan speed:               861.5 bp/sec

Cove analysis of tRNAs ended: Thu Jul 17 21:55:53 PDT 2008

Summary
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Overall scan speed: 517150.3 bp/sec

tRNAs decoding Standard 20 AA:              221
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      5
                                            -------
Total tRNAs:                                227

tRNAs with introns:     	45

| Pro-TGG: 7 | Ser-CGA: 1 | Ser-GCT: 3 | Leu-TAG: 4 | Leu-CAA: 8 | Phe-GAA: 6 | Lys-TTT: 3 | Ile-TAT: 2 | Tyr-GTA: 6 | Trp-CCA: 5 |

Isotype / Anticodon Counts:

Ala   : 16	  AGC: 10      GGC:         CGC:         TGC: 6     
Gly   : 15	  ACC:         GCC: 12      CCC: 1       TCC: 2     
Pro   : 8	  AGG: 1       GGG:         CGG:         TGG: 7     
Thr   : 14	  AGT: 9       GGT:         CGT: 1       TGT: 4     
Val   : 14	  AAC: 10      GAC:         CAC: 1       TAC: 3     
Ser   : 16	  AGA: 9       GGA:         CGA: 1       TGA: 3       ACT:         GCT: 3     
Arg   : 16	  ACG: 4       GCG:         CCG: 1       TCG:         CCT: 1       TCT: 10    
Leu   : 17	  AAG:         GAG: 1       CAG:         TAG: 4       CAA: 8       TAA: 4     
Phe   : 7	  AAA:         GAA: 7                               
Asn   : 10	  ATT:         GTT: 10                              
Lys   : 16	                            CTT: 12      TTT: 4     
Asp   : 9	  ATC:         GTC: 9                               
Glu   : 13	                            CTC: 3       TTC: 10    
His   : 7	  ATG:         GTG: 7                               
Gln   : 8	                            CTG: 2       TTG: 6     
Ile   : 12	  AAT: 9       GAT: 1                    TAT: 2     
Met   : 9	                            CAT: 9                  
Tyr   : 6	  ATA:         GTA: 6                               
Supres: 0	                            CTA:         TTA:       
Cys   : 3	  ACA:         GCA: 3                               
Trp   : 5	                            CCA: 5                  
SelCys: 1	                                         TCA: 1