Extract a window of sequence around a position
Paste raw sequence or one or more FASTA sequences. Input limit is 500,000,000 characters.
Size of the window to extract (number of bases)
How to position the window relative to the specified position
The base position for window extraction
Which strand to extract from
How to format the extracted window in the output
Paste your DNA sequences in FASTA format and specify the base position of interest for window extraction.
Set the window size and choose orientation (centered, ending, or starting at position). Select strand (direct or reverse complement).
Choose how to display the window: as a new sequence, or highlighted within the full sequence using uppercase/lowercase formatting.
Execute to extract the window and download results for promoter analysis, SNP context studies, or primer design applications.
Extract a window around transcription start sites to analyze promoter sequences and regulatory elements.
Extract sequences centered on SNP positions to study the local sequence context of genetic variants.
Extract windows around target positions to design PCR primers or probes with appropriate flanking sequences.
Extract sequences around known motifs to analyze conservation patterns in flanking regions.
Centered:
The window is centered on the specified position. For a window of size 61 at position 50, bases 20-80 would be extracted.
Position 50: start = 50 - round(61/2) + 1 = 20, end = 80Ending:
The window ends at the specified position. For a window of size 61 ending at position 100, bases 40-100 would be extracted.
Position 100: start = 100 - 61 + 1 = 40, end = 100Starting:
The window starts at the specified position. For a window of size 61 starting at position 10, bases 10-70 would be extracted.
Position 10: start = 10, end = 10 + 61 - 1 = 70