tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Sun May 18 04:39:40 PDT 2008

------------------------------------------------------------
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
------------------------------------------------------------

First-pass (tRNAscan/EufindtRNA) Stats:
---------------
Sequences read:         13
Seqs w/at least 1 hit:  12
Bases read:             108492946 (x2 for both strands)
Bases in tRNAs:         442562
tRNAs predicted:        5567
Av. tRNA length:        79
Script CPU time:        21.37 s
Scan CPU time:          71.71 s
Scan speed:             3025.9 Kbp/sec

First pass search(es) ended: Sun May 18 04:41:20 PDT 2008

Cove Stats:
-----------
Candidate tRNAs read:     5567
Cove-confirmed tRNAs:     958
Bases scanned by covels:  520500
% seq scanned by covels:  0.2 %
Script CPU time:          14.59 s
Cove CPU time:            373.48 s
Scan speed:               1393.6 bp/sec

Cove analysis of tRNAs ended: Sun May 18 04:56:50 PDT 2008

Summary
--------
Overall scan speed: 450973.5 bp/sec

tRNAs decoding Standard 20 AA:              772
Selenocysteine tRNAs (TCA):                 2
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   3
Predicted pseudogenes:                      181
                                            -------
Total tRNAs:                                958

tRNAs with introns:     	41

| Gly-GCC: 1 | Leu-TAG: 1 | Leu-CAA: 10 | Phe-GAA: 1 | Asn-ATT: 1 | Ile-TAT: 5 | Tyr-GTA: 22 |

Isotype / Anticodon Counts:

Ala   : 51	  AGC: 30      GGC:         CGC: 7       TGC: 14    
Gly   : 73	  ACC:         GCC: 20      CCC: 6       TCC: 47    
Pro   : 51	  AGG: 6       GGG: 1       CGG: 4       TGG: 40    
Thr   : 42	  AGT: 22      GGT:         CGT: 9       TGT: 11    
Val   : 38	  AAC: 26      GAC:         CAC: 6       TAC: 6     
Ser   : 43	  AGA: 16      GGA:         CGA: 8       TGA: 10      ACT:         GCT: 9     
Arg   : 48	  ACG: 23      GCG:         CCG: 2       TCG: 11      CCT: 2       TCT: 10    
Leu   : 57	  AAG: 27      GAG:         CAG: 7       TAG: 6       CAA: 11      TAA: 6     
Phe   : 22	  AAA:         GAA: 22                              
Asn   : 25	  ATT:         GTT: 25                              
Lys   : 58	                            CTT: 42      TTT: 16    
Asp   : 36	  ATC:         GTC: 36                              
Glu   : 50	                            CTC: 31      TTC: 19    
His   : 21	  ATG:         GTG: 21                              
Gln   : 35	                            CTG: 10      TTG: 25    
Ile   : 45	  AAT: 21      GAT:                      TAT: 24    
Met   : 24	                            CAT: 24                 
Tyr   : 22	  ATA:         GTA: 22                              
Supres: 0	                            CTA:         TTA:       
Cys   : 17	  ACA:         GCA: 17                              
Trp   : 14	                            CCA: 14                 
SelCys: 2	                                         TCA: 2