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DNA Sequence Tools
Text and Data Tools
Calculators

DNA Sequence Tools

DNA Sequence Editor (WebDSV )

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Basic molecular biology app to create, edit and analyze DNA sequences, mark and visualize sequence features, and generate plasmid maps. With WebDSV you can analyze restriction sites, perform in silico molecular cloning, and design PCR primers. No registration is needed. All processing runs locally, no data are sent over the internet.

PCR Primer Inspector

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Calculate melting temperatures of DNA oligonucleotides. Analyze potential primer dimers. Batch processing of multiple sequences.

Restriction Analyzer

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Carry out in silico restriction analysis online. Quickly find absent and unique sites. Inspect all sites in a clearly arranged table. Analyze restriction fragments. Simulate a gel electrophoresis.

Restriction Comparator

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Carry out parallel in silico restriction analysis online. Compare two sequences side by side. Find distinguishing restriction sites. Visualize restriction patterns.

Silent Mutator

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In silico silent mutagenesis online tool. Introduce new restriction sites without changing the encoded amino acid sequence. Supports all commercially available restriction enzymes. Supports all genetic codes. Unlimited sequence length.

Random Sequence Generator

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Generate random DNA, RNA or protein sequences. Based on the Mersenne Twister algorithm. No unwanted repeats are generated even in very long sequences. Can be used for calculations of DNA, RNA and protein molecular weights and for string reverse and complement transformations (also with user-provided sequences).

Text and Data Tools

Target Text Extractor

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Find and extract or remove target text patterns. Extract text between words. Extract words that begin with specific characters. Extract gene symbols from complex annotations. Online regular expression searching and match-extracting tool.

Multiple List Comparator

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Compare data lists to find shared items. Compare up to 36 lists. Find intersections among large biological data sets.

List Operations

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Perform set operations on data lists (union, intersection, subtraction). Remove duplicate items. Sort, reverse, or shuffle a list.

Table Operations

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Remove rows and columns by numbers, patterns or content. Rearrange tables by moving columns under each other. Modify cell contents with prefixing or appending characters. Easy transfer of data from and back into a spreadsheet software.

Two-table Operations

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Extract or remove table rows with a selection list. Extract table rows by reference columns match. Align two tables.

Random Gene Set Generator

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Generate random gene lists of defined length. Challenge GSEA results with random gene sets to estimate true significance of enrichments found with real data.

Calculators

DNA Calculator

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Calculate basic chemical properties of a DNA or RNA molecule. Calculate concentration from 260 nm absorbance. Calculate molarity, mass or volume. Calculate base-pair molarity of dsDNA solutions.

Chemical Calculator

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Calculate molarity, mass or volume. Calculate molarity from percentual concentration. Calculate dilution of stock solutions.

Buffer Calculator

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With this tool you can estimate the pH value of a buffer solution with Henderson-Hasselbalch equation. Also, a list of pKa values of common buffers is provided.

Centrifugation

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Experiment protocols may contain both relative centrifugation force (RCF) and revolutions per minute (RPM) values in centrifugation parameter specifications. This tool allows you to convert between RCF and RPM.

Combinatorics

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How many different selections of items from a collection can you get? How many times a set of items can be rearranged? Use this tool to calculate numbers of combinations and permutations.

Probabilities

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Calculate probabilities of random events following Poisson, binomial, hypergeometric, geometric or negative binomial distribution.

Molbiotools molecular biology free web apps molecular cloning help free online software tools and information resources for molecular cloning web browser-based applications that work the same on Windows, Mac and Linux systems free online molecular cloning software for molecular cloning

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DISCLAIMER: This free software comes without any warranty. The author of the software bears no responsibility for any loss or damage that may arise from its use for any purpose.