Compare two DNA sequences allowing for inversions and translocations, ideal for promoters. TCoffee multiple sequence alignment program that Allows you to combine results obtained with several alignment methods…more Muscle Multiple Sequence Comparison by Log Expectation, claimed to achieve both better average accuracy and better speed than ClustalW2 or TCoffee, depending on the chosen options…more Wise2 Compare protein sequence or protein profile HMM to DNA sequence. CpG PlotCpGreport CpG Island finder and plotting tool EMBOSS. Transeq DNA sequence translation tool EMBOSS.

Tools such as Transeq can help determine the protein coding regions of DNA sequence. TCoffee multiple sequence alignment program. MUSCLE MUltiple Sequence Comparison by LogExpectation, claimed to achieve both better average accuracy and better speed than ClustalW2 or TCoffee, depending on the chosen options. Align Align ompares query sequences. EMBOSS free Open Source software analysis package specially developed for the needs of the molecular biology user community. CENSOR Screen query sequences against reference collection of repeats. Use needle when you want to do local alignment…

MAFFT MAFFT Multiple Alignment using Fast Fourier Transform is high speed multiple sequence alignment algorithm.

Tools such as Transeq can help determine the protein coding regions of DNA sequence. Tools Home Tools AZ ID Mapping PICR Literature EBIMed Protein Corral Whatizit Microarray Analysis Bioconductor Expression Profiler Protein Functional Analysis CluSTr FingerPRINTScan InterProScan Inquisitor InterProScan Phobius PPSearch Pratt Radar Proteomic Services Dasty IntEnz PRIDE UniProt DAS DistributedAnnotation System Sequence Analysis Align CENSOR ClustalW2 CpG Plot CpGreport Dna Block Aligner Form Compares two DNA sequences allowing for inversions and translocations, ideal for promoters. The software copes with data in many formats and even allows retrieval of sequence data from the web.