tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Fri Jul 11 12:58:10 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:         3317
Seqs w/at least 1 hit:  637
Bases read:             996173606 (x2 for both strands)
Bases in tRNAs:         821333
tRNAs predicted:        8814
Av. tRNA length:        93
Script CPU time:        157.73 s
Scan CPU time:          627.06 s
Scan speed:             3177.3 Kbp/sec

First pass search(es) ended: Fri Jul 11 13:13:26 PDT 2008

Cove Stats:
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Candidate tRNAs read:     8814
Cove-confirmed tRNAs:     1309
Bases scanned by covels:  944708
% seq scanned by covels:  0.0 %
Script CPU time:          22.25 s
Cove CPU time:            812.15 s
Scan speed:               1163.2 bp/sec

Cove analysis of tRNAs ended: Fri Jul 11 13:34:57 PDT 2008

Summary
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Overall scan speed: 1230459.2 bp/sec

tRNAs decoding Standard 20 AA:              1072
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        1
tRNAs with undetermined/unknown isotypes:   2
Predicted pseudogenes:                      233
                                            -------
Total tRNAs:                                1309

tRNAs with introns:     	49

| Thr-GGT: 1 | Ser-TGA: 1 | Ser-GCT: 1 | Ile-AAT: 2 | Met-CAT: 20 | Tyr-GTA: 22 | Supres-CTA: 1 | Supres-TTA: 1 |

Isotype / Anticodon Counts:

Ala   : 49	  AGC: 24      GGC:         CGC: 8       TGC: 17    
Gly   : 62	  ACC:         GCC: 33      CCC: 10      TCC: 19    
Pro   : 58	  AGG: 22      GGG:         CGG: 5       TGG: 31    
Thr   : 38	  AGT: 10      GGT: 9       CGT: 5       TGT: 14    
Val   : 61	  AAC: 23      GAC: 15      CAC: 13      TAC: 10    
Ser   : 84	  AGA: 17      GGA: 2       CGA: 7       TGA: 18      ACT:         GCT: 40    
Arg   : 77	  ACG: 23      GCG: 1       CCG: 5       TCG: 9       CCT: 14      TCT: 25    
Leu   : 104	  AAG: 17      GAG:         CAG: 7       TAG: 14      CAA: 56      TAA: 10    
Phe   : 25	  AAA: 1       GAA: 24                              
Asn   : 35	  ATT: 2       GTT: 33                              
Lys   : 47	                            CTT: 24      TTT: 23    
Asp   : 46	  ATC:         GTC: 46                              
Glu   : 52	                            CTC: 24      TTC: 28    
His   : 25	  ATG:         GTG: 25                              
Gln   : 37	                            CTG: 15      TTG: 22    
Ile   : 108	  AAT: 98      GAT: 2                    TAT: 8     
Met   : 76	                            CAT: 76                 
Tyr   : 32	  ATA:         GTA: 32                              
Supres: 1	                            CTA:         TTA: 1     
Cys   : 30	  ACA:         GCA: 30                              
Trp   : 26	                            CCA: 26                 
SelCys: 1	                                         TCA: 1