Ncbinlmnihgovtracessra using ncbi sra if you can

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Unformatted text preview: ted from the from the reference. Example of CIGAR RefPos: ! Reference: Read: ! ! !1 !C ! !2 !C ! !3 !A ! !4 !T ! 5 A A 6 C C 7 T T A 8 G G 9 10 11 12 13 14 15 16 17 18 19! A A C T G A C T A A C! AA T G G C T! In the SAM file you will have the following fields: •  •  POS: 5 CIGAR: 3M1I3M1D5M! Final Comments •  BAM is a compressed version of the SAM file format. There are mul0ple programs that convert BAM files to SAM files and vice versa. •  Tablet (h\p:// is an easy to use, program that allows you to visualize an alignment. –  You simply give it a sam file and a fasta file and it reads the sam file and shows you the alignment. Finding Short Read Data Where to obtain data? •  Answer: NCBI website: –  NCBI contains mul0ple reference genomes (large fasta files) and sho...
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This note was uploaded on 02/10/2014 for the course CS 680 taught by Professor Staff during the Fall '08 term at Colorado State.

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