tRNAscan-SE Analysis of the Bacillus anthracis A2012 Genome

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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: Sun Jul 27 13:42:12 PDT 2008

------------------------------------------------------------
Search Mode:                 Bacterial
Searching with:              tRNAscan + EufindtRNA -> Cove
Covariance model:            TRNA2-bact.cm
tRNAscan parameters:         Strict
EufindtRNA parameters:       Relaxed (Int Cutoff= -36)

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

First-pass (tRNAscan/EufindtRNA) Stats:
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Sequences read:         3
Seqs w/at least 1 hit:  3
Bases read:             5370060 (x2 for both strands)
Bases in tRNAs:         18377
tRNAs predicted:        167
Av. tRNA length:        110
Script CPU time:        0.87 s
Scan CPU time:          3.32 s
Scan speed:             3235.0 Kbp/sec

First pass search(es) ended: Sun Jul 27 13:42:17 PDT 2008

Cove Stats:
-----------
Candidate tRNAs read:     167
Cove-confirmed tRNAs:     34
Bases scanned by covels:  20708
% seq scanned by covels:  0.2 %
Script CPU time:          0.45 s
Cove CPU time:            21.34 s
Scan speed:               970.4 bp/sec

Cove analysis of tRNAs ended: Sun Jul 27 13:42:41 PDT 2008

Summary
--------
Overall scan speed: 413399.5 bp/sec

tRNAs decoding Standard 20 AA:              32
Selenocysteine tRNAs (TCA):                 0
Possible suppressor tRNAs (CTA,TTA):        0
tRNAs with undetermined/unknown isotypes:   1
Predicted pseudogenes:                      1
                                            -------
Total tRNAs:                                34

tRNAs with introns:     	0

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Isotype / Anticodon Counts:

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