vastsoc.blogg.se - Linux sequencher files

Lep sequence-ATTTGAAGACCTACAGGTTTTTTAGT→ C_Fish will have either:įishR2 sequence-TTCTGATTCTTCTTCGGTCACCCTGAA. so if the reverse primer is ATGC then you will find GCAT at the end of your sequence). That means that at the right end of the forward sequence, you will find the reverse primer complimented and backwards (eg. Go to the far right and find the compliment of the reverse primer at the very end. Go to the very end, at the far right, of the sequences and delete on the consensus sequence where there are many Ns. When you have located the primer, highlight it on the consensus sequence at the bottom and press the Delete key. VF2 ←TCAACCAACCACAAAGACATTGGCAC-sequence FishF2 ←TCGACTAATCATAAAGATATCGGCAC-sequence Folmer ←GGTCAACAAATCATAAAGATATTGG-sequence 10. Lep ←ATTCAACCAATCATAAAGATATTGG-sequence C_Fish will have either: You will find the primer around about 50bp. For the reverse direction, you need to find the forward primer (eg Lep F, FishF2) and delete it off the beginning of the sequence (farthest to the left side of the screen). Click on “Bases” and maximize the screen. Double click on the reverse contig to open it.You should now have two contigs, one that has all the reverse sequences, and another with all the forward sequences.

Highlight all the forward sequences and press the box “Assemble Automatically”.

If you double click on the contig, you should now see a lot of red lines. Click on the contig that you have just created to highlight it. Then press the box “Assemble Automatically” and when you get a message about assembly completed, press Close. Select the box “Assembly parameters” Move the minimum match percentage to 75 and press OK.

Highlight all the reverse sequences (click and drag the mouse).

Click on "comments" next to separate the forward from the reverse.

There will be a warning message asking if you really want to delete the sequences, select "Throw them away". Press the trash can icon at the top of the screen to delete them. In the white space beside the files you want to delete click and drag your mouse to highlight the sequences that are short. Any files that contain less than 550bp should be deleted. Click on "Size" at the top of the screen to sort by size.

You should now see the names of all of your trace files.Press OK, and when the warning box comes up press Import all files in folder. Under File > Import > Folder of sequences (find the name of the folder that contains only the.Then click on "Type" and it will separate the.

Demo mode does not allow you to save or export anything, making it rather useless. NOTE: Before you begin to edit your sequences, make sure that you are NOT running in DEMO mode.