tRNAscan-SE v.1.23 (April 2002) scan results (on host )
Started: Wed Dec 28 17:44:08 CET 2011

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Sequence file(s) to search:  /users/rg/didac/GENOMES/D.discoideum_AX4/genome.fa
Search Mode:                 Eukaryotic
Results written to:          D.discoideum_AX4.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:  D.discoideum_AX4_summary.txt
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         6
Seqs w/at least 1 hit:  6
Bases read:             33943072 (x2 for both strands)
Bases in tRNAs:         49702
tRNAs predicted:        578
Av. tRNA length:        85
Script CPU time:        6.39 s
Scan CPU time:          27.20 s
Scan speed:             2495.8 Kbp/sec

First pass search(es) ended: Wed Dec 28 17:44:44 CET 2011

Cove Stats:
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Candidate tRNAs read:     578
Cove-confirmed tRNAs:     403
Bases scanned by covels:  57794
% seq scanned by covels:  0.1 %
Script CPU time:          2.06 s
Cove CPU time:            80.88 s
Scan speed:               714.6 bp/sec

Cove analysis of tRNAs ended: Wed Dec 28 17:46:13 CET 2011

Summary
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Overall scan speed: 582563.7 bp/sec

tRNAs decoding Standard 20 AA:              401
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      2
                                            -------
Total tRNAs:                                403

tRNAs with introns:     	40

| Ala-TGC: 8 | Thr-CGT: 1 | Thr-TGT: 6 | Ser-CGA: 1 | Gln-CTG: 1 | Ile-TAT: 4 | Tyr-GTA: 12 | Trp-CCA: 7 |

Isotype / Anticodon Counts:

Ala   : 23	  AGC: 15      GGC:         CGC:         TGC: 8     
Gly   : 23	  ACC:         GCC: 18      CCC:         TCC: 5     
Pro   : 16	  AGG: 1       GGG:         CGG:         TGG: 15    
Thr   : 23	  AGT: 16      GGT:         CGT: 1       TGT: 6     
Val   : 28	  AAC: 20      GAC:         CAC: 1       TAC: 7     
Ser   : 37	  AGA: 9       GGA:         CGA: 1       TGA: 15      ACT:         GCT: 12    
Arg   : 20	  ACG: 7       GCG:         CCG:         TCG: 1       CCT: 1       TCT: 11    
Leu   : 37	  AAG: 11      GAG:         CAG: 1       TAG: 3       CAA: 4       TAA: 18    
Phe   : 14	  AAA:         GAA: 14                              
Asn   : 18	  ATT:         GTT: 18                              
Lys   : 32	                            CTT: 10      TTT: 22    
Asp   : 22	  ATC:         GTC: 22                              
Glu   : 22	                            CTC: 3       TTC: 19    
His   : 9	  ATG:         GTG: 9                               
Gln   : 14	                            CTG: 1       TTG: 13    
Ile   : 21	  AAT: 17      GAT:                      TAT: 4     
Met   : 15	                            CAT: 15                 
Tyr   : 12	  ATA:         GTA: 12                              
Supres: 0	                            CTA:         TTA:       
Cys   : 8	  ACA:         GCA: 8                               
Trp   : 7	                            CCA: 7                  
SelCys: 0	                                         TCA: