This is a graphical tool for analyzing short repeats in DNA sequences. It uses a compute shader running on the GPU to quickly look for matches across sequences up to 152 Mbases long.
- Scroll and pan sliders are larger and easier to grab
- Panning can now be adjusted in single increments
- Loading indicator added
- View single or multiple sections of FASTA file
- Pick any 100-length sample and get near-instant match results from 0% to 100%
- Manually enter any 100-length sample
- Enter the path to your FASTA file in the top left, then press "Load" and let sit
- When the sections of the file show up along the left, select one or more (Shift-Click or Ctrl-Click) sequences and click "Analyze"
- You will probably need to resize the window now
- Each loaded section is given a window which has a zoom slider to the right and a pan slider below
- The window at the bottom is a map of the focused sequence. To change focus, click the check box at the top left of any sequence viewer window
- Below the map is the manual sample entry box, as well as a slider that controls the location within the sequence that is being sampled. The use of these two is mutually exclusive
- To analyze different sections, make your new selection and click "Analyze" again. The sample last used will remain in use until you select a new one
- "Load" button will load the file even if it is already loaded, and loaded files cannot be cleared except by restarting the program
- User interface is not optimized for high resolution displays
- Only supports short repeats of length 100 bases
- Cannot analyze sequences larger than 152,087,500 bases
- Viewing multiple sequences at once requires lots of vertical screen space
- Uses lots of memory
- Support for analyzing arbitrarily long sequences
- Selectable short repeat length options (1000, 100, 50, 25)
- Export analysis results
- Accessibility features such as displaying the results as audio
- Low memory mode
- Sequence caching to save load times
- Cute loading animation and app icon
- Adding color to lines