GtRNAdb

tRNAscan-SE Analysis of Anopheles gambiae

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tRNAscan-SE Run Options & Statistics

tRNAscan-SE v.1.23 (April 2002) scan results (on host lowepub.cse.ucsc.edu)
Started: Sun May 18 04:31:43 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:         6
Seqs w/at least 1 hit:  5
Bases read:             230482020 (x2 for both strands)
Bases in tRNAs:         382271
tRNAs predicted:        4050
Av. tRNA length:        94
Script CPU time:        36.00 s
Scan CPU time:          160.04 s
Scan speed:             2880.3 Kbp/sec

First pass search(es) ended: Sun May 18 04:35:21 PDT 2008

Cove Stats:
-----------
Candidate tRNAs read:     4050
Cove-confirmed tRNAs:     422
Bases scanned by covels:  438971
% seq scanned by covels:  0.1 %
Script CPU time:          9.30 s
Cove CPU time:            372.12 s
Scan speed:               1179.6 bp/sec

Cove analysis of tRNAs ended: Sun May 18 04:49:27 PDT 2008

Summary
--------
Overall scan speed: 798261.4 bp/sec

tRNAs decoding Standard 20 AA:              414
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   0
Predicted pseudogenes:                      8
                                            -------
Total tRNAs:                                422

tRNAs with introns:     	27

| Leu-CAA: 3 | Ile-TAT: 2 | Tyr-GTA: 22 |

Isotype / Anticodon Counts:

Ala   : 26	  AGC: 17      GGC:         CGC: 6       TGC: 3     
Gly   : 23	  ACC:         GCC: 15      CCC:         TCC: 8     
Pro   : 28	  AGG: 7       GGG:         CGG: 13      TGG: 8     
Thr   : 15	  AGT: 8       GGT:         CGT: 5       TGT: 2     
Val   : 63	  AAC: 31      GAC:         CAC: 29      TAC: 3     
Ser   : 22	  AGA: 6       GGA:         CGA: 8       TGA: 2       ACT:         GCT: 6     
Arg   : 22	  ACG: 10      GCG:         CCG:         TCG: 8       CCT: 2       TCT: 2     
Leu   : 23	  AAG: 5       GAG:         CAG: 10      TAG: 3       CAA: 3       TAA: 2     
Phe   : 9	  AAA:         GAA: 9                               
Asn   : 11	  ATT:         GTT: 11                              
Lys   : 25	                            CTT: 17      TTT: 8     
Asp   : 20	  ATC:         GTC: 20                              
Glu   : 26	                            CTC: 15      TTC: 11    
His   : 21	  ATG:         GTG: 21                              
Gln   : 15	                            CTG: 11      TTG: 4     
Ile   : 14	  AAT: 12      GAT:                      TAT: 2     
Met   : 18	                            CAT: 18                 
Tyr   : 22	  ATA:         GTA: 22                              
Supres: 0	                            CTA:         TTA:       
Cys   : 5	  ACA:         GCA: 5                               
Trp   : 6	                            CCA: 6                  
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.