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This page is a subsection of the list of sequence alignment software.. Multiple alignment visualization tools typically serve four purposes: Aid general understanding of large-scale DNA or protein alignments
PlasMapper (Plasmid Mapper) [1] is a freely available web server that automatically generates and annotates high-quality circular plasmid maps. It is a particularly useful online service for molecular biologists wishing to generate plasmid maps without having to purchase or maintain expensive, commercial software.
A restriction map is a map of known restriction sites within a sequence of DNA. Restriction mapping requires the use of restriction enzymes . In molecular biology , restriction maps are used as a reference to engineer plasmids or other relatively short pieces of DNA, and sometimes for longer genomic DNA.
Alignments—The read name, read sequence, read quality, alignment information, and custom tags are all included in this file. The chromosome, start coordinate, alignment quality, and match descriptor string are all included in the read name. Alignment Section includes the following: Read Group (RG) Barcode Tag (BC) Single-end alignment quality ...
Molecular biology tools. Vector Database—A curated list of over 4,000 vector backbones, including relevant cloning information and bacterial growth conditions.. Sequence Analyzer—An Addgene software tool for creating plasmid maps from sequences with annotated features and restriction sites.
There are two distinctive mapping approaches used in the field of genome mapping: genetic maps (also known as linkage maps) [7] and physical maps. [3] While both maps are a collection of genetic markers and gene loci, [8] genetic maps' distances are based on the genetic linkage information, while physical maps use actual physical distances usually measured in number of base pairs.
An example of a plasmid cloning vector which modifies the inserted protein is pFUSE-Fc plasmid. In order to genetically engineer insulin, the first step is to cut the MCS in the plasmid being used. [8] Once the MCS is cut, the gene for human insulin can be added making the plasmid genetically modified.
Gapped short-read and long-read alignment based on maximal exact match seeds. This aligner supports both base-space (e.g. from Illumina, 454, Ion Torrent and PacBio sequencers) and ABI SOLiD color-space read alignments. Yes No Yes Yes Free, GPL: 2014 CUSHAW2-GPU GPU-accelerated CUSHAW2 short-read aligner. Yes No Yes Yes Free, GPL: CUSHAW3