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Sequence Statistics

The sequence statistics macros perform some common sequence statistics tasks on a sequences alignment: They calculate the amino acid composition of the sequences, count the occurance of different amino acids at given positions in a sequence alignment, determine the consensus sequence, sequence variability and frequency of the most abundant amino acid, and convert the numeric values generated by these analyses to color codes.

Example: The coloring of the frequency table makes it immediately apparent that this particular position (Residue 77) shows a strong preference for basic residues in all types of IG variable domains


AA_SeqLength counts number of valid amino acid within the selected sequences. The result is placed in the column following the selected sequence block.

AA_Composition determines the amino acid composition of all sequences in an alignment

AA_Frequency determines the frequency of different amino acids in each position of a sequence alignment, the consensus sequence, the percentage of sequences which agree with the consensus and the Kabat sequence variability at this position.

AA_FreqValColor colors the table generated by AA_Frequency by valueas shown on the left

AA_SeqVarColor converts the Kabat sequence variability values to a color code

AA_FreqDistribute rearranges a series of tables generated by AA_Frequency in such a way that the results for each residue position are collected in a separate table on a separate worksheet

AA_Similarity colors a sequence alignment according to similarity to a reference sequence. Calculated %sequence similarity, % sequence identity and the length of each sequence (color code)

AA_Differences Colors a sequence alignment in such a way that the differences between neighboring sequences are highlighted and counts the number of differences between a sequence and the next one in the alignment

AAAAA Homepage Zürich University Dept. of Biochemistry Plückthun Group Annemarie Honegger

Last Modified by A.Honegger Wednesday, January 26, 2005