how to Find genome coordinates of all the chromosomes of nucleotide sequence ,mainly DNA-seq data

Question

[raushnichoudhary]

I have DNA-seq data of lung tissue in .fa format, i need to know the coordinates of each chromosomes, in bed format(final result). please help me in this... Thanks in advance..

[lieven.sterck]

You need to know the location on the chromosomes where those DNAseq reads are derived from?

If so, align them to the chromosomes sequences and parse out the coordinates.

[raushnichoudhary]

like there are command through which we can Find genome coordinates of nucleotide sequence within specific gene, similarly can we do in whole genome?

[lieven.sterck]

yes there are.

It's usually appreciated if you show that you have put al least some effort in resolving this yourself.

Did you search for tools that can do alignment of sequences against chromosomes?

[raushnichoudhary]

No, i did not search for tools..

[raushnichoudhary]

Please guide me through this, i have no idea how to implement this, i am new in this field.