I have two questions - I apologize if they are trivial..

1) I want to simulate the amount of Illumina sequencing needed to sequence  and assemble a known genome.  Is there a way to randomly pick sequences of a specific length from a genome (either one available online or one I upload)?  Something like "pick 100bp randomly (either strand), move 400-500bp forward and pick another 100bp?"

2) Is there a way to remove redundant sequences from a FASTA file without losing the original sequence names (as happens with "collapse")?



Daniel Sher, PhD
Department of Marine Biology
Leon H. Charney School of Marine Sciences
University of Haifa, Mt. Carmel 31905, Haifa, Israel
Office +972-4-8240731
Lab    +972-4-8288961
email: ds...@sci.haifa.ac.il

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