tRNAscan-SE v.1.23 (April 2002) scan results (on host )
Started: Wed Dec 28 19:43:08 CET 2011

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Sequence file(s) to search:  /users/rg/didac/GENOMES/A.laibachii_Nc14/genome.fa
Search Mode:                 Eukaryotic
Results written to:          /users/rg/didac/STUDENTS_PROJECT/tRNA/A.laibachii_Nc14.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.laibachii_Nc14_summary.txt
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         3816
Seqs w/at least 1 hit:  228
Bases read:             32740139 (x2 for both strands)
Bases in tRNAs:         33473
tRNAs predicted:        342
Av. tRNA length:        97
Script CPU time:        4.71 s
Scan CPU time:          30.97 s
Scan speed:             2114.3 Kbp/sec

First pass search(es) ended: Wed Dec 28 19:43:58 CET 2011

Cove Stats:
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Candidate tRNAs read:     342
Cove-confirmed tRNAs:     138
Bases scanned by covels:  38247
% seq scanned by covels:  0.1 %
Script CPU time:          0.46 s
Cove CPU time:            45.79 s
Scan speed:               835.3 bp/sec

Cove analysis of tRNAs ended: Wed Dec 28 19:44:45 CET 2011

Summary
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Overall scan speed: 799222.2 bp/sec

tRNAs decoding Standard 20 AA:              126
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   1
Predicted pseudogenes:                      10
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Total tRNAs:                                138

tRNAs with introns:     	1

| Tyr-GTA: 1 |

Isotype / Anticodon Counts:

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