The Stop Codon Map plots the positions of all the stop codons on one or both strands of a contig consensus sequence. If the Contig Editor is being used on the same contig, the Refresh button will be enabled, and if used, will fetch the current consensus from the editor, repeat the search and replot the stop codons.
The figure shows a typical zoomed in view of the Stop Codon Map display.
The positions for the stop codons in each reading frame (here all six
frames are
shown) are displayed in horizontal strips. Along the top are buttons for
zooming, the crosshair toggle, a refresh
button and two boxes for showing the crosshair position. The left box shows
the current position and the right-hand box the separation of the last two
stop codons selected by the user. Below the display of stop codons is a
ruler and a horizontal scrollbar. The information line is showing the data
for
the last stop codon the user has touched with the cursor. Also shown on the
left is the View menu which is used to select the
reading frames to display
(see section Stop Codon Map).
![[picture]](stops.unix.gif.html)
(Click for full size image)
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Last generated on 22 October 2002.
URL: http://www.mrc-lmb.cam.ac.uk/pubseq/manual/gap4_unix_11.html