tRNAscan-SE v.1.23 (April 2002) scan results (on host )
Started: Wed Dec 28 18:50:09 CET 2011

------------------------------------------------------------
Sequence file(s) to search:  /users/rg/didac/GENOMES/P.polycephalum/genome.fa
Search Mode:                 Eukaryotic
Results written to:          /users/rg/didac/STUDENTS_PROJECT/tRNA/P.polycephalum.txt
Output format:               Tabular
Searching with:              tRNAscan + EufindtRNA -> Cove
Covariance model:            TRNA2-euk.cm
tRNAscan parameters:         Strict
EufindtRNA parameters:       Relaxed (Int Cutoff= -32.1)
Search statistics saved in:  /users/rg/didac/STUDENTS_PROJECT/tRNA/P.polycephalum_summary.txt
------------------------------------------------------------

First-pass (tRNAscan/EufindtRNA) Stats:
---------------
Sequences read:         297657
Seqs w/at least 1 hit:  2168
Bases read:             319018052 (x2 for both strands)
Bases in tRNAs:         267134
tRNAs predicted:        2528
Av. tRNA length:        105
Script CPU time:        135.98 s
Scan CPU time:          544.42 s
Scan speed:             1172.0 Kbp/sec

First pass search(es) ended: Wed Dec 28 19:29:45 CET 2011

Cove Stats:
-----------
Candidate tRNAs read:     2528
Cove-confirmed tRNAs:     370
Bases scanned by covels:  302152
% seq scanned by covels:  0.0 %
Script CPU time:          1.43 s
Cove CPU time:            345.24 s
Scan speed:               875.2 bp/sec

Cove analysis of tRNAs ended: Wed Dec 28 19:35:43 CET 2011

Summary
--------
Overall scan speed: 621219.7 bp/sec

tRNAs decoding Standard 20 AA:              355
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   3
Predicted pseudogenes:                      12
                                            -------
Total tRNAs:                                370

tRNAs with introns:     	28

| Ala-TGC: 5 | Gly-GCC: 1 | Gly-TCC: 3 | Pro-TGG: 1 | Arg-TCT: 2 | Leu-CAG: 1 | Gln-TTG: 2 | Ile-TAT: 2 | Tyr-GTA: 11 |

Isotype / Anticodon Counts:

Ala   : 22	  AGC: 10      GGC:         CGC: 3       TGC: 9     
Gly   : 23	  ACC: 1       GCC: 11      CCC: 3       TCC: 8     
Pro   : 54	  AGG: 13      GGG:         CGG: 2       TGG: 39    
Thr   : 16	  AGT: 8       GGT:         CGT: 4       TGT: 4     
Val   : 12	  AAC: 5       GAC:         CAC: 5       TAC: 2     
Ser   : 18	  AGA: 5       GGA:         CGA: 6       TGA: 2       ACT:         GCT: 5     
Arg   : 12	  ACG: 5       GCG:         CCG: 1       TCG: 1       CCT: 2       TCT: 3     
Leu   : 23	  AAG: 8       GAG:         CAG: 3       TAG: 2       CAA: 7       TAA: 3     
Phe   : 6	  AAA:         GAA: 6                               
Asn   : 4	  ATT:         GTT: 4                               
Lys   : 11	                            CTT: 8       TTT: 3     
Asp   : 12	  ATC:         GTC: 12                              
Glu   : 13	                            CTC: 7       TTC: 6     
His   : 8	  ATG:         GTG: 8                               
Gln   : 9	                            CTG: 4       TTG: 5     
Ile   : 10	  AAT: 8       GAT:                      TAT: 2     
Met   : 78	                            CAT: 78                 
Tyr   : 12	  ATA: 1       GTA: 11                              
Supres: 0	                            CTA:         TTA:       
Cys   : 8	  ACA: 1       GCA: 7                               
Trp   : 4	                            CCA: 4                  
SelCys: 0	                                         TCA: