UNIX for Dummies Questions & Answers

Hi drl

I used a different file in which the lines start like this:
chr1_1 strand.....
chr17_498 strand.....
chr2_0 strand.....
chr17_48 strand.....

the space is before 'strand'

I really appreciate your help.

Hi.

I don't understand your response. Are you using a completely different format for the data file, is the problem solved, or what? ... cheers, drl

I guess it is a different format. Here are few lines of the data:

data1

>chr1_12 strand:+ excise_beg:16047184 excise_end:16047293
ACTTACCCGAGAACGTGCGGGAAGAGAAGATCATCGAGCATTTCAAACGGTGAGTGACACG
>chr13_124 strand:+ excise_beg:16047141 excise_end:16047250
CCGCCCAGCATGGTCCGGGAAACCAGGCATCTCTGGGTGGGCAACTTACCCGAGAACGTGCG
>chr9_2 strand:+ excise_beg:44109537 excise_end:44109646
AGGGGACCAGAAGAACCCTGGTAGAGAACTCAGGAGAAGGAGGCTAGGAA


data2
chr1_12
chr13_124

Hi.

As far as I can tell, the problem is then solved.

If ask questions in the future, I suggest:

1) post a representative data set,

2) place CODE tags around data and program (script) text. You can do this by dragging your selection pointer across the text of interest, and, while it remains selected, click the # just above the forum editing window. You will then end up with text

Code:

like this

which makes it much easier for responders to read.

Best wishes ... cheers, drl