GtRNAdb

tRNAscan-SE Analysis of Encephalitozoon cuniculi

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tRNAscan-SE Run Options & Statistics

tRNAscan-SE v.1.23 (April 2002) scan results (on host lowedev.cse.ucsc.edu)
Started: Thu Jul 17 22:02:24 PDT 2008

------------------------------------------------------------
Search Mode:                 Eukaryotic
Searching with:              tRNAscan + EufindtRNA -> Cove
Covariance model:            TRNA2-euk.cm
tRNAscan parameters:         Strict
EufindtRNA parameters:       Relaxed (Int Cutoff= -32.1)

Reporting HMM/2' structure score breakdown
------------------------------------------------------------

First-pass (tRNAscan/EufindtRNA) Stats:
---------------
Sequences read:         11
Seqs w/at least 1 hit:  11
Bases read:             2497519 (x2 for both strands)
Bases in tRNAs:         4320
tRNAs predicted:        51
Av. tRNA length:        84
Script CPU time:        0.32 s
Scan CPU time:          1.72 s
Scan speed:             2904.1 Kbp/sec

First pass search(es) ended: Thu Jul 17 22:02:26 PDT 2008

Cove Stats:
-----------
Candidate tRNAs read:     51
Cove-confirmed tRNAs:     46
Bases scanned by covels:  5034
% seq scanned by covels:  0.1 %
Script CPU time:          0.13 s
Cove CPU time:            6.07 s
Scan speed:               829.3 bp/sec

Cove analysis of tRNAs ended: Thu Jul 17 22:02:37 PDT 2008

Summary
--------
Overall scan speed: 606193.9 bp/sec

tRNAs decoding Standard 20 AA:              46
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      0
                                            -------
Total tRNAs:                                46

tRNAs with introns:     	2

| Ile-TAT: 1 | Tyr-GTA: 1 |

Isotype / Anticodon Counts:

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


The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.