tRNAscan-SE v.1.23 (April 2002) scan results (on host lowepub.cse.ucsc.edu)
Started: Sun May 18 03:56:09 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:         12
Seqs w/at least 1 hit:  12
Bases read:             370792118 (x2 for both strands)
Bases in tRNAs:         402605
tRNAs predicted:        4250
Av. tRNA length:        94
Script CPU time:        53.16 s
Scan CPU time:          251.76 s
Scan speed:             2945.6 Kbp/sec

First pass search(es) ended: Sun May 18 04:01:48 PDT 2008

Cove Stats:
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Candidate tRNAs read:     4250
Cove-confirmed tRNAs:     764
Bases scanned by covels:  462105
% seq scanned by covels:  0.1 %
Script CPU time:          9.77 s
Cove CPU time:            411.11 s
Scan speed:               1124.0 bp/sec

Cove analysis of tRNAs ended: Sun May 18 04:13:53 PDT 2008

Summary
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Overall scan speed: 1021747.4 bp/sec

tRNAs decoding Standard 20 AA:              738
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      26
                                            -------
Total tRNAs:                                764

tRNAs with introns:     	36

| Ala-GGC: 1 | Thr-TGT: 1 | Ser-TGA: 1 | Ser-GCT: 2 | Met-CAT: 15 | Tyr-ATA: 1 | Tyr-GTA: 13 | Cys-GCA: 2 |

Isotype / Anticodon Counts:

Ala   : 43	  AGC: 20      GGC: 1       CGC: 12      TGC: 10    
Gly   : 47	  ACC:         GCC: 28      CCC: 9       TCC: 10    
Pro   : 37	  AGG: 14      GGG:         CGG: 9       TGG: 14    
Thr   : 39	  AGT: 11      GGT: 8       CGT: 5       TGT: 15    
Val   : 47	  AAC: 17      GAC: 16      CAC: 10      TAC: 4     
Ser   : 61	  AGA: 12      GGA: 4       CGA: 8       TGA: 17      ACT:         GCT: 20    
Arg   : 59	  ACG: 24      GCG:         CCG: 8       TCG: 4       CCT: 11      TCT: 12    
Leu   : 58	  AAG: 15      GAG:         CAG: 10      TAG: 10      CAA: 19      TAA: 4     
Phe   : 20	  AAA:         GAA: 20                              
Asn   : 29	  ATT:         GTT: 29                              
Lys   : 32	                            CTT: 20      TTT: 12    
Asp   : 32	  ATC: 1       GTC: 31                              
Glu   : 41	                            CTC: 25      TTC: 16    
His   : 26	  ATG:         GTG: 26                              
Gln   : 31	                            CTG: 10      TTG: 21    
Ile   : 23	  AAT: 18      GAT:                      TAT: 5     
Met   : 56	                            CAT: 56                 
Tyr   : 21	  ATA: 2       GTA: 19                              
Supres: 0	                            CTA:         TTA:       
Cys   : 18	  ACA: 1       GCA: 17                              
Trp   : 18	                            CCA: 18                 
SelCys: 0	                                         TCA: