No I extrcated -. But your sense antisense sequences should be the same but in reverse right? But your two sequences are completely different ? Why is that?
On Fri, Sep 17, 2010 at 7:08 PM, John McPherson John.McPherson@oicr.on.cawrote:
I think that you have extracted the “+” strand for your comparison. Below is the “-” strand from UCSC hg18
hg18_dna range=chr10:123229360-123229525 5'pad=0 3'pad=0 strand=+
repeatMasking=lower TTCATGTTTTAACACTGCCGTTTATGTGTGGATACTGAGGAAGGCATGGT TCGTAAGGCATGGGGTCTGGAGAAAAAACAGAATCATCTCCTGAAGAACA AGAACTTCTTGTGTCAGGGTAACTAGGTGAATACTGTTCGAGAGGTTGGC TGAGGTCCAAGTATTC
hg18_dna range=chr10:123229360-123229525 5'pad=0 3'pad=0 strand=-
repeatMasking=lower GAATACTTGGACCTCAGCCAACCTCTCGAACAGTATTCACCTAGTTACCC TGACACAAGAAGTTCTTGTTCTTCAGGAGATGATTCTGTTTTTTCTCCAG ACCCCATGCCTTACGAACCATGCCTTCCTCAGTATCCACACATAAACGGC
AGTGTTAAAACATGAA
On 10-09-16 11:28 PM, "gireesh bogu" gireeshkbogu@gmail.com wrote:
Dear Galaxy
I found a bug in extracting FATSA sequence tool in galaxy.
I extracted sequence of this location chr10 123229360 123229525 fgfr2 0 -
hg18_chr10_123229360_123229525_-
GAATACTTGGACCTCAGCCAACCTCTCGAACAGTATTCACCTAGTTACCC TGACACAAGAAGTTCTTGTTCTTCAGGAGATGATTCTGTTTTTTCTCCAG ACCCCATGCCTTACGAACCATGCCTTCCTCAGTATCCACACATAAACGGC AGTGTTAAAACATGA
And I checked back in UCSC browser by pasting the same location. The sequences are completely different (hg18).
Could you please help me in this issue
Thanx Gireesh