A Java-enabled browser would have in this place a window similar to this picture:

How to understand its output

The first window below the input area is a graphical representation of all the peptides that can be obtained upon translation in all the ORF. All the 6 frames are shown one beneath the other and are numbered on the left side from 0 to 5. Along each frame, peptides that can be obtained (given the presence of start/stop codon pairs) are displayed as colored bars. A yellow grid every 10 bp is superimposed, and red lines are drawn every 100 bases. Labels are placed in the bottom part of this graph, for navigational purposes. Would the input DNA sequence exceed 600 bp, the graph can be scrolled acting on the scrollbar placed above the graph. By clicking on anyone of the colored bars, more details are shown in the segments below:

A textual area below the colored graph contains further information on the specified translation object. It consists of one or more lines, depending on the length of the transcript, which begins with the frame index (from 0 to 5), the aminoacid sequence in three-letter notation, and finally the location of begin and end on the DNA sequence.

The last window which is present in this application is a colored and 10base formatted image of the DNA sequence. It is colored using the same color as the currently selected peptide sequence. It is thus very simple to see the entire information set.


Doelz,R.(1990)BioCompanion, Biocomputing Essentials series, ISBN 3-905 434-00-8
Author:Luca I.G. TOLDO, "Edition date: 28 February 1997