DREEM Documentation

This tutorial walks you through the basics of website interface, explains parameters and results, Hover mouse to the for detailed descriptions.


Section #1: Website Input

Upload
A fasta formated file that contains all reference sequences. see examples
Upload
A fastq formatted file containing sequence reads in the forward direction. Can be zip compressed. see example
Upload
A fastq formatted file containing sequence reads in the reverse direction. Can be zip compressed.
Provide a name for your submission to help you more easily recognize it later
Provide your email to get a notification once the job is complete
Example Results

Section #2: Job Output

Download job results

Bowtie alignment

Bowtie assigns reads to reference sequences supplied in the fasta file. High percentage of reads that aligned 0 times could be a sign of supplying the incorrect reference sequence.

Name Count Percent
Total reads 2500
Reads aligned 0 times 168 6.72
Reads aligned exactly 1 time 2331 93.24
Reads aligned >1 times 1 0.04

DMS MaP analysis

Here is a break down of which reads were assigned to each reference sequence. Futhermore, each reference sequence will have a corresponding plot which breaks down the fraction of mutations per nucleotide.

# Reference Reads Aligned Signal/Noise
1 mttr-6-alt-h3 2332 99.96 7.76