Contents of this Article

An alignment is a comparison between biological sequences (DNA, RNA, or proteins) where they are put together to identify regions of similarity. TeselaGen helps you aligning your sequences as part of the tools in the Molecular Biology Toolkit.

From your alignments library, you can create a new entry by clicking on "New Sequence Alignment".
​

There are three types of alignments you can make. Let's get to know how to work with each one of them.

This alignment type allows you to compare three or more sequences at the same time. To start an MSA, select this option and click on "continue".

On this screen you can either upload files from your computer, select from the sequences you already have in your libraries, or manually introducing your sequence on a text box. Once you have the sequences you want to compare and clicked on "Create Alignment", a new entry will be created in your library.

Once the status of that new entry is "completed" you can double click on it to see the results:

The alignment will show you all of the sequences with their identifiers on the left side. The mismatches bewteen them will be highlighted in red.

The pairwise alignment compares two sequences to identify similitudes and differences bewteen them. Similar to the MSA, we can upload files, select from our libraries, or manually adding them.

🚨NOTE: The first sequence we select or upload will be taken by the system as the reference sequence (RefSeq).

After our alignment is complete, we can review the results:

Notice that these results may not show any details, if we click on "Inspect track" the full information will be displayed:

We can edit which features will be shown by selecting the options available on the eye icon.

To review our sanger sequencing results we follow the same procedure. We select the "Map to Reference Sequence" and "Sanger Sequencing" options.

After this, we will need to select our sequences (both the reference and the aligned ones). On this case we selected a sequence from the DNA Sequences library.

We can select several sequences from different sources. Just as with MSA, the first sequence we select or upload will be used as the reference sequence (RefSeq).

On this case we selected the RefSeq from our library, and the sequencing results will be uploaded from the "Upload" option:

After the status of our new entry has changed to "Complete" we can double-click on it to see the results:

Our sequencing results will look like this by default:

We can see the sequence IDs (name of the entries or files) on the left side, and the mismatches will be highlighted in red. However, if you want to see more features, you can click on the eye icon to display the list of features you can enable.

If we enable the chromatogram, our sequencing results would look like this (as long as you uploaded a file containing this information, i.e. not a FASTA format).

If we right-click anywhere in our results, an option to "Show Quality Scores" will be shown. If active, our screen will look like this:

Remember that not all of your results will always look the same. Chromatogram and mismatches will depend on your results!