Sequence Alignment

VectorBuilder’s Sequence Alignment tool allows you to compare two DNA or protein sequences to determine the percent identity and percent similarity between them. While percent identity is calculated based on the number of nucleotides or amino acids that exactly match between the two aligned sequences, percent similarity represents the extent to which the two aligned sequences resemble each other. Therefore, a high percent similarity between two aligned sequences does not necessarily indicate that they are identical, rather it suggests that the two sequences possess several nucleotides or amino acids with overlapping chemical properties. Determining how identical and/or similar two sequences are to each other is a common approach for inferring structural, functional or evolutionary relationship between two sequences.

Additionally, our Sequence Alignment tool utilizes gaps and gap penalties while aligning the two sequences to maximize the chances of matching two nucleotides or two amino acids while maintaining data integrity. While gaps account for insertions or deletions in the aligned sequences, gap penalties assign negative scores to the alignment based on the frequency and length of the gaps.

  • Sequences in both GenBank and FASTA formats can be recognized by this tool.
  • Allows sequences of up to 10,000 bases or 10,000 amino acids in length to be entered.