Cipres Science Gateway | BOXSHADE Information

BOXSHADE

BOXSHADE is a program for pretty-printing multiple alignment output. The program itself doesn't do any alignment, you have to use a multiple alignment program like ClustalW or Pileup and use the output of these programs as input for BOXSHADE. Of course, you can also use manually aligned sequences (in a proper format). INPUT = aligned sequence files.

manual: http://www.ch.embnet.org/software/BOX_doc.html

TEST INPUT FILE

126742336      -------ATGGTGCTGTCTCCCGCTGACAAGGCCAACGTCAAGGCCGCCTGGGGCAAGGT
110005943      ACCCACCATGGTGCTGTCTGCCGCCGACAAGTCCAATGTCAAGGCCGCCTGGGGCAAGGT
66865969       -------ATGGTGCTGTCTGCCGCCGACAAGTCCAATGTCAAGGCCGCCTGGGGCAAGGT
                      ************ **** ****** **** ***********************

126742336      CGGGGGCCACGCCGGCGAGTATGGCGCCGAGGCCCTGGAGAGG-----------------
110005943      TGGCGGCAACGCTGGAGCTTATGGCGCAGAGGCTCTGGAGAGG-----------------
66865969       TGGCGGCAACGCTCCAGCTTTTGGCGCAGAGGCCCTGGAGAGGTGAGCACCGCACCTGCC
                ** *** ****    * * ****** ***** *********

TEST OUTPUT FILE

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