tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Thu Jul 17 21:56:59 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:         8
Seqs w/at least 1 hit:  8
Bases read:             12250285 (x2 for both strands)
Bases in tRNAs:         22904
tRNAs predicted:        274
Av. tRNA length:        83
Script CPU time:        1.79 s
Scan CPU time:          8.14 s
Scan speed:             3009.9 Kbp/sec

First pass search(es) ended: Thu Jul 17 21:57:10 PDT 2008

Cove Stats:
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Candidate tRNAs read:     274
Cove-confirmed tRNAs:     226
Bases scanned by covels:  26740
% seq scanned by covels:  0.1 %
Script CPU time:          0.82 s
Cove CPU time:            31.06 s
Scan speed:               860.9 bp/sec

Cove analysis of tRNAs ended: Thu Jul 17 21:58:06 PDT 2008

Summary
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Overall scan speed: 585997.8 bp/sec

tRNAs decoding Standard 20 AA:              220
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      5
                                            -------
Total tRNAs:                                226

tRNAs with introns:     	56

| Pro-TGG: 7 | Val-TAC: 1 | Ser-CGA: 1 | Ser-GCT: 2 | Arg-ACG: 5 | Arg-CCG: 1 | Phe-GAA: 8 | Lys-CTT: 12 | Lys-TTT: 7 | Ile-TAT: 2 | Met-CAT: 4 | Tyr-GTA: 6 |

Isotype / Anticodon Counts:

Ala   : 13	  AGC: 7       GGC:         CGC: 1       TGC: 5     
Gly   : 16	  ACC:         GCC: 11      CCC: 1       TCC: 4     
Pro   : 8	  AGG: 1       GGG:         CGG:         TGG: 7     
Thr   : 12	  AGT: 8       GGT:         CGT: 1       TGT: 3     
Val   : 13	  AAC: 11      GAC:         CAC: 1       TAC: 1     
Ser   : 14	  AGA: 7       GGA:         CGA: 1       TGA: 4       ACT:         GCT: 2     
Arg   : 19	  ACG: 6       GCG:         CCG: 1       TCG:         CCT: 1       TCT: 11    
Leu   : 16	  AAG: 2       GAG:         CAG: 1       TAG:         CAA: 4       TAA: 9     
Phe   : 9	  AAA:         GAA: 9                               
Asn   : 9	  ATT:         GTT: 9                               
Lys   : 20	                            CTT: 12      TTT: 8     
Asp   : 10	  ATC:         GTC: 10                              
Glu   : 11	                            CTC: 1       TTC: 10    
His   : 6	  ATG:         GTG: 6                               
Gln   : 8	                            CTG: 1       TTG: 7     
Ile   : 12	  AAT: 9       GAT: 1                    TAT: 2     
Met   : 10	                            CAT: 10                 
Tyr   : 6	  ATA:         GTA: 6                               
Supres: 0	                            CTA:         TTA:       
Cys   : 4	  ACA:         GCA: 4                               
Trp   : 4	                            CCA: 4                  
SelCys: 1	                                         TCA: 1