tRNAscan-SE v.1.23 (April 2002) scan results (on host )
Started: Wed Dec 28 17:42:19 CET 2011

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Sequence file(s) to search:  /users/rg/didac/GENOMES/D.fasciculatum/genome.fa
Search Mode:                 Eukaryotic
Results written to:          D.fasciculatum.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.fasciculatum_summary.txt
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         25
Seqs w/at least 1 hit:  20
Bases read:             31019208 (x2 for both strands)
Bases in tRNAs:         40748
tRNAs predicted:        411
Av. tRNA length:        99
Script CPU time:        5.10 s
Scan CPU time:          28.90 s
Scan speed:             2146.7 Kbp/sec

First pass search(es) ended: Wed Dec 28 17:42:55 CET 2011

Cove Stats:
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Candidate tRNAs read:     411
Cove-confirmed tRNAs:     198
Bases scanned by covels:  46502
% seq scanned by covels:  0.1 %
Script CPU time:          1.34 s
Cove CPU time:            67.33 s
Scan speed:               690.7 bp/sec

Cove analysis of tRNAs ended: Wed Dec 28 17:44:08 CET 2011

Summary
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Overall scan speed: 604250.7 bp/sec

tRNAs decoding Standard 20 AA:              197
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      1
                                            -------
Total tRNAs:                                198

tRNAs with introns:     	16

| Ala-CGC: 1 | Ala-TGC: 2 | Leu-CAG: 1 | Ile-TAT: 2 | Tyr-GTA: 7 | Trp-CCA: 3 |

Isotype / Anticodon Counts:

Ala   : 11	  AGC: 7       GGC:         CGC: 1       TGC: 3     
Gly   : 14	  ACC:         GCC: 10      CCC:         TCC: 4     
Pro   : 10	  AGG: 2       GGG:         CGG: 1       TGG: 7     
Thr   : 12	  AGT: 8       GGT:         CGT: 1       TGT: 3     
Val   : 14	  AAC: 10      GAC:         CAC: 1       TAC: 3     
Ser   : 16	  AGA: 6       GGA:         CGA: 2       TGA: 4       ACT:         GCT: 4     
Arg   : 12	  ACG: 6       GCG:         CCG:         TCG: 1       CCT: 1       TCT: 4     
Leu   : 15	  AAG: 5       GAG:         CAG: 1       TAG: 1       CAA: 5       TAA: 3     
Phe   : 6	  AAA:         GAA: 6                               
Asn   : 9	  ATT:         GTT: 9                               
Lys   : 16	                            CTT: 11      TTT: 5     
Asp   : 12	  ATC:         GTC: 12                              
Glu   : 11	                            CTC: 3       TTC: 8     
His   : 5	  ATG:         GTG: 5                               
Gln   : 0	                            CTG:         TTG:       
Ile   : 11	  AAT: 9       GAT:                      TAT: 2     
Met   : 8	                            CAT: 8                  
Tyr   : 7	  ATA:         GTA: 7                               
Supres: 0	                            CTA:         TTA:       
Cys   : 5	  ACA:         GCA: 5                               
Trp   : 3	                            CCA: 3                  
SelCys: 0	                                         TCA: