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