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Dna Sequencers 150 Bps Output File

I am doing some experiment using BowTie which is a short read aligner that aligns short DNA sequences (reads) to the human genome. Now, I want, to experiment with it on 150 bps reads. So, I want DNA sequencers 150 bps output file. For example, output of this (Genome Analyzer IIx). Can anybody please help me, where can I find it ? Or is there any BioInfo community who can help me about this ?

dna
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updated by Hamish Hamish • written by Arpssss • Arpssss

2 answers

Are you just looking for raw sequencing reads? If so: Short Read Archive should have what you want.

SRA

The main page states:

The Sequence Read Archive (SRA) stores raw sequencing data from the next generation of sequencing platforms including Roche 454 GS System®, Illumina Genome Analyzer®, Applied Biosystems SOLiD® System, Helicos Heliscope®, Complete Genomics®, and Pacific Biosciences SMRT®.

One example experiment:

data

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written by Zev.Kronenberg Zev.Kronenberg

The Short Read Archive contains FASTQ data. They have a conversion script to dump SRA to FASTQ.

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written by Zev.Kronenberg Zev.Kronenberg

Thanks a lot. But, I really don't find any folder saying that they contains, 150 bps length Short Read.

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written by Arpssss • Arpssss

Well you could look in the European Nucleotide Archive (ENA). From a quick query ENA contains a number of sequencing runs produced using the Genome Analyzer IIx ("instrument_model=Illumina Genome Analyzer IIx"), so they would be a place to start.

The ENA provide Web Services (see http://www.ebi.ac.uk/ena/about/browser), and the experiment meta-data is available so you can automate your search for appropriate experiments, and fetch the referenced FASTAQ data from the FTP site.

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written by Hamish Hamish

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