Edit DNA trace with this tool. Ridom TraceEdit is a cross-platform graphical DNA trace viewer and editor. TraceEdit displays the chromatogram files from Applied Biosystems automated sequencers and files in the Staden SCF format. Incorrect base calls can be edited and saved. TraceEdit is freely available and designed to operate on Windows, MacOS X and UNIX platforms.

DNA sequencing has been the standard against which other types of DNA testing is compared. Major advances in DNA sequencing include the development of automated sequencers, discovery of fluorescent terminator chemistry, and cycle sequencing. These developments have made sequencing easier to perform and therefore more widely used. Currently, sequencing is used to identify microbial drug resistance mutations, cancer predisposition, somatic mutations, and genetic diseases. With the sequencing of the human genome and the "new era of molecular medicine", one can only expect the use of DNA sequencing to increase. Therefore, an increasing number of people need to check the evidence for individual DNA sequences by inspecting the chromatograms (more commonly known as trace files) from which the base calls were deduced. Trace files are stored in proprietary formats, such as those of ABI, or public formats such as SCF.

Ridom TraceEdit can read ABI and SCF trace files and displays their contents. The program can be used to locate and delete the extent of low quality data at both ends of the sequence (trimming by Ns or low base quality values if available). It also enables the user to edit the base calls and to save them in SCF file format. A typical display from TraceEdit includes the name and additional information of the sequence being inspected, the menu bar, the file list pane with tool bar, and the trace editor pane with tool bar. In the file list pane a trace file can be chosen to be displayed in the editor pane. The trace editor pane shows the trace data, the quality values (if available), the original sequence, the edited sequence, and the base positions. The extent of poor quality data at the left of the reading is denoted by gray shading. A separate text window (not shown) is used to display the textual data contained in the file.

Ridom TraceEdit Features:
1. Operate on Windows, Mac OS X, and Linux operating systems
2. View ABI and SCF chromatogram files
3. Open at once several chromatogram files or whole directories
4. Sort file list by different predefined options
5. Navigate file list by keyboard shortcuts
6. Scale the trace peak size vertically and horizontally
7. Scroll a trace to a desired position
8. Select bases from the trace
9. Search for sequences using regular expressions
10. Display or hide original base calls
11. Display or hide quality values, if included in the chromatogram file
12. Display as text other chromatogram information contained in the file
13. Display as text the DNA sequence of your chromatogram
14. Display the reverse complement of a trace
15. Mark or unmark bases of interest (low quality, ambiguities)
16. Import sequences from NCBI nucleotide database by accession numbers
17. Print a trace
18. Produce a PDF of a trace
19. Copy, paste, and edit sequences
20. Use contextual menus to copy, paste, and edit
21. Trim sequence ends by Ns or low base quality values
22. Save traces in SCF format
23. Export base calls as a FASTA sequence
24. Initiate a BLAST search from edited sequence
25. Communicate directly from within the software with the developers for bug reports and feature requests
26. Update the software automatically online

The license of this software is Freeware, you can free download and free use this cad software.