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Sequence Alignment

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Screenshot of Sequence Alignment Sequence Alignment 1.0
A tool to compare two Protein Sequences and show similarities with the help of dotplot.
Price: USD $0.00;   License: Freeware   File Size: 49 KB;
Platform: Windows, Mac, Linux

No Screenshot ClustalX 2.0.10
Clustal X is a new windows interface for the ClustalW multiple sequence alignment program. It provides an integrated environment for performing multiple sequence and profile alignments and analysing the results. The sequence alignment is displayed in a window on the screen. A versatile coloring scheme has been incorporated allowing you to highlight conserved features in the alignment. The pull-down menus at the top of the window allow you to...
Price: USD $0.00;   License: Freeware   File Size: 1843 KB;
Platform: Windows XP, Windows, Windows Vista , Windows Vista x64,Windows 7,Windows 7 x64

Analysis - Analyze - Analyzer - Multiple Sequence Analysis - Analyze Multiple Sequence - Profile Alignments Checker
No Screenshot CodonCode Aligner 4.0.3
CodonCode Aligner is an easy to use software for sequence assembly, contig editing, and mutation detection.CodonCode Aligner Features:1. Multiple sequence assembly and sequence alignment algorithms2. Manual and automated sequence editing3. Align contigs to each other and get back to the underlying trace data with a simple double-click4. Reference sequences and difference tables5. Sensitive mutation detection6. Advanced methods for heterozygous...

Price: USD $0.00;   License: Shareware (Free to Try)   File Size: 37765 KB;
Platform: Windows

Sequence Alignment - Sequence Assembly - DNA Sequencing - Mutation Detection
No Screenshot Geneious for Mac OS 5.1.5
An automatically-updating library of genomic and genetic data; that provides a fully integrated, visually-advanced toolset for - Sequence alignment and phylogenetics - Sequence analysis, Contig assembly, - primers, restriction analysis - BLAST. Protein structure viewing, NCBI, UniProt, Pubmed auto-find and more - API for creating your own plug-ins - Primer browser: Used for choosing primers for testing and trimming. Allows sorting of...

Price: USD $0.00;   License: Freeware   File Size: 78848 KB;
Platform: Mac, Linux , 10.4,or,later

Geneious
No Screenshot MacGDE for Mac OS 2.4
A set of programs for multiple sequence alignment and analysis. The programs use an expandable user interface which allows the addition of external analysis functions without any rewriting of code. The system supports several data types, nucleic and amino acid sequences, text, and masking sequence, and three forms of color highlighting. The system has several external analysis functions included for such things as automated alignment,...

Price: USD $0.00;   License: Freeware   File Size: 43827 KB;
Platform: Mac, Linux , 10.4,or,later

MacGDE
No Screenshot POP (Parameter Optimization Procedure) 1.0
POP (Parameter Optimization Procedure) optimize substitution matrix choice and gap parameters for sequence alignment.

Price: USD $0.00;   License: Freeware   File Size: 73 KB;
Platform: Windows

No Screenshot GeneDoc 2.7.000
GeneDoc is a Full Featured Multiple Sequence Alignment Editor, Analyser and Shading Utility for Windows.GeneDoc Features:1. Data Analysis and Visualization.2. Score assisted manual alignment.3. Paginated Printouts.4. Windows Based.5. Highly Configurable.6. Exported Figures.7. Phylogenetic Tree support.GeneDoc installs as a regular windows program, into a GeneDoc software group. After starting GeneDoc, use file open and read in a MSF (Multiple...

Price: USD $0.00;   License: Freeware   File Size: 1320 KB;
Platform: Windows

No Screenshot MAFFT 6.843
Sequence alignment analysis. MAFFT is a multiple sequence alignment software for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of < 200 sequences), FFT-NS-2 (fast; for alignment of < 10,000 sequences), etc.

Price: USD $0.00;   License: Freeware   File Size: 5150 KB;
Platform: Windows

No Screenshot Rate4Site 2.01
Rate4Site is a software for detecting conserved amino-acid sites by computing the relative evolutionary rate for each site in the multiple sequence alignment (MSA).The rate of evolution is not constant among amino acid sites: some positions evolve slowly and are commonly referred to as "conserved", while others evolve rapidly and are referred to as "variable". The rate variations correspond to different levels of purifying...

Price: USD $0.00;   License: Freeware   File Size: 372 KB;
Platform: Windows

No Screenshot SinicView 1.03
View nucleotide sequence alignment with this application. SinicView (for Sequence-aligning INnovative and Interactive Comparison VIEWer) is a visualization environment for comparisons of multiple nucleotide sequence alignment tools, allows the user to efficiently compare and evaluate assorted nucleotide alignment results obtained by different tools. SinicView calculates similarity of the alignment outputs under a fixed window using the...

Price: USD $0.00;   License: Freeware   File Size: 4024 KB;
Platform: Windows

No Screenshot SHiAT 0.9.1
Generates plots of site-wise variation along a sequence alignment. SHiAT (Shannon Heterogeneity in Alignments Tool), it generates plots of site-wise variation along a sequence alignment (including the Shannon Entropy and Hamming Distance measures).This software provides an intuitive graphical interface for the simultaneous calculation of three measures of sitewise variation in DNA or RNA alignments. The Shannon Information index, Hamming...

Price: USD $0.00;   License: Freeware   File Size: 995 KB;
Platform: Windows

No Screenshot HoKAlign 0.2 Alpha
HoKAlign is a GUI under Windows for several free command line driven sequence alignment programs. Currently supported programs1. ClustalW (GUI: ClustalX 2)2. ClustalW2 (GUI: ClustalX 1)3. Muscle (versions 3.6 and 3.7)4. MAFFT (supported, the source for Cygwin is stored in the subfolder \scr)5. T-Coffee6. KAlign7. DiAlign8. Prank (GUI: Prankster)9. ProbCons10. Amap11. ProDA12. PCMA13. POAHow to install1. Unpack the files form the Zip file while...

Price: USD $0.00;   License: Freeware   File Size: 9943 KB;
Platform: Windows

No Screenshot MacVector 10.5
MacVector.. Researchers who want a simple but comprehensive desktop sequence analysis application continually turn to MacVector, the leading sequence analysis package for the Macintosh. MacVector provides sequence editing, primer design, Internet database searches, protein analysis, sequence confirmation, contig assembly capabilities, multiple sequence alignment, phylogenetic reconstruction, coding region analysis, and a wide variety of other...

Price: USD $0.00;   License: Demo  
Platform: Mac

Clone - Cloning - Alignment - Blast - Cds - Dna - Macintosh - Sequence - Genome - Gene
No Screenshot BACContigEditor 1.0
BACContigEditor is a simple sequence alignment editing tool, written in Java. It is originally developed for finishing BAC shotgun sequencing projects, but the program could be easily extended to the whole genome project.

Price: USD $0.00;   License: Freeware   File Size: 867 KB;
Platform: Windows, Mac, Linux

Screenshot of JAligner JAligner 0.2
JAligner is an open source Java implementation of the dynamic programming algorithm Smith-Waterman with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model.

Price: USD $0.00;   License: Freeware   File Size: 162 KB;
Platform: Windows, Mac, Linux

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