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Old 02-22-2017, 06:21 AM   #3
rajesh1989
Junior Member
 
Location: india

Join Date: Feb 2015
Posts: 7
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thank you for the reply.
this is output of tophat prep_reads.info

left_min_read_len=25
left_max_read_len=101
left_reads_in =6673385
left_reads_out=6667431
right_min_read_len=25
right_max_read_len=101
right_reads_in =6673385
right_reads_out=6673220

where are rest of the reads if tophat didn't map them. i also checked unmapped.bam it's size is very small.
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