Have just noticed that it seems to miss some of the TB 5S rRNA sequence:
[barrnap] Found: 5S_rRNA AL123456; L=76/119 5..80 + 5S ribosomal RNA (partial)
[barrnap] Found 1 ribosomal RNA features.
[barrnap] Sorting features and outputting GFF3...
##gff-version 3
AL123456; barrnap:0.9 rRNA 5 80 3.5e-14 + . Name=5S_rRNA;product=5S ribosomal RNA (partial);note=aligned only 63 percent of the 5S ribosomal RNA
[barrnap] Done.
RUN ON:
>TB-5S-rRNA AL123456; Mycobacterium tuberculosis H37Rv complete genome.
UUACGGCGGCCACAGCGGCAGGGAAACGCCCGGUCCCAUUCCGAACCCGG
AAGCUAAGCCUGCCAGCGCCGAUGAUACUGCCCCUCCGGGUGGAAAAGUA
GGACACCGCCGAACA
Can you reproduce this?
I built a HMMer model on an older Rfam RF00001 SEED alignment and that seems to work pretty well. There are definitely Mycobacteria sequences in the seed, so it should work well.
Hi Torsten,
Great job on a wonderful tool. ;-)
Have just noticed that it seems to miss some of the TB 5S rRNA sequence:
Can you reproduce this? I built a HMMer model on an older Rfam RF00001 SEED alignment and that seems to work pretty well. There are definitely Mycobacteria sequences in the seed, so it should work well.
E.g.
Thanks for your time! Paul & Helena.