tRNAscan-SE v.1.23 (April 2002) scan results (on host )
Started: Wed Dec 28 19:54:48 CET 2011

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Sequence file(s) to search:  /users/rg/didac/GENOMES/A.rara/genome.fa
Search Mode:                 Eukaryotic
Results written to:          /users/rg/didac/STUDENTS_PROJECT/tRNA/A.rara.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/A.rara_summary.txt
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         3231
Seqs w/at least 1 hit:  63
Bases read:             1450095 (x2 for both strands)
Bases in tRNAs:         11965
tRNAs predicted:        139
Av. tRNA length:        86
Script CPU time:        1.16 s
Scan CPU time:          4.73 s
Scan speed:             613.1 Kbp/sec

First pass search(es) ended: Wed Dec 28 19:55:06 CET 2011

Cove Stats:
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Candidate tRNAs read:     139
Cove-confirmed tRNAs:     56
Bases scanned by covels:  13712
% seq scanned by covels:  0.5 %
Script CPU time:          0.04 s
Cove CPU time:            13.99 s
Scan speed:               980.1 bp/sec

Cove analysis of tRNAs ended: Wed Dec 28 19:55:20 CET 2011

Summary
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Overall scan speed: 145591.9 bp/sec

tRNAs decoding Standard 20 AA:              55
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      1
                                            -------
Total tRNAs:                                56

tRNAs with introns:     	1

| Tyr-GTA: 1 |

Isotype / Anticodon Counts:

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