tRNAscan-SE Run Options & Statistics

	
tRNAscan-SE v.2.0 (Sept 2015) scan results (on host isla)
Started: Sat Sep 26 01:16:58 PDT 2015

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Search Mode:                 Eukaryotic
Searching with:              Infernal First Pass->Infernal
Perform isotype specific model scan
Covariance model:            infernal-1.1/TRNAinf-euk.cm
Infernal first pass cutoff score: 0
Isotype specific

Reporting HMM/2' structure score breakdown
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First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         27
Seqs w/at least 1 hit:  25
Bases read:             358618246 (x2 for both strands)
Bases in tRNAs:         64827
tRNAs predicted:        866
Av. tRNA length:        74
Script CPU time:        77.20 s
Scan CPU time:          190.52 s
Scan speed:             3764.6 Kbp/sec

First pass search(es) ended: Sat Sep 26 01:19:55 PDT 2015

Infernal Stats:
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Candidate tRNAs read:     866
Infernal-confirmed tRNAs:     629
Bases scanned by Infernal:  82147
% seq scanned by Infernal:  0.0 %
Script CPU time:          8.36 s
Infernal CPU time:            1434.26 s
Scan speed:               57.3 bp/sec

Infernal analysis of tRNAs ended: Sat Sep 26 01:47:56 PDT 2015

Overall scan speed: 419353.2 bp/sec

tRNAs decoding Standard 20 AA:              539
Selenocysteine tRNAs (TCA):                 1
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   6
Predicted pseudogenes:                      83
                                            -------
Total tRNAs:                                629

tRNAs with introns:     	58

| Val-CAC: 1 | Ser-GGA: 20 | Arg-GCG: 1 | Arg-TCT: 8 | Leu-CAA: 7 | Leu-TAA: 1 | His-GTG: 1 | Ile-TAT: 5 | Tyr-ATA: 3 | Tyr-GTA: 11 |

Isotype / Anticodon Counts:

Ala   : 34	  AGC: 20      GGC:         CGC: 4       TGC: 10    
Gly   : 34	  ACC:         GCC: 14      CCC: 6       TCC: 14    
Pro   : 27	  AGG: 11      GGG: 1       CGG: 4       TGG: 11    
Thr   : 49	  AGT: 26      GGT:         CGT: 13      TGT: 10    
Val   : 29	  AAC: 10      GAC:         CAC: 15      TAC: 4     
Ser   : 33	  AGA: 12      GGA: 1       CGA: 2       TGA: 7       ACT:         GCT: 11    
Arg   : 40	  ACG: 14      GCG:         CCG: 2       TCG: 6       CCT: 9       TCT: 9     
Leu   : 65	  AAG: 15      GAG:         CAG: 32      TAG: 6       CAA: 7       TAA: 5     
Phe   : 18	  AAA: 1       GAA: 17                              
Asn   : 17	  ATT:         GTT: 17                              
Lys   : 29	                            CTT: 20      TTT: 9     
Asp   : 18	  ATC:         GTC: 18                              
Glu   : 28	                            CTC: 13      TTC: 15    
His   : 12	  ATG:         GTG: 12                              
Gln   : 27	                            CTG: 18      TTG: 9     
Ile   : 21	  AAT: 16      GAT:                      TAT: 5     
Met   : 20	                            CAT: 20                 
Tyr   : 13	  ATA:         GTA: 13                              
Supres: 0	                            CTA:         TTA:       
Cys   : 15	  ACA:         GCA: 15                              
Trp   : 10	                            CCA: 10                 
SelCys: 1	                                         TCA: 1