re = /((?=\w+\d+_)\w+.fa)/m
str = 'chr5 153584000 153599999 D16073_orphan_reads.fa;709[F18|R11] unkn 1 unkn 2509
chr7 153764000 153775999 D16073_orphan_reads.fa;710[F9|R21],14892_orphan_reads.fa;229[F19|R16] unkn 1 unkn 2510
chr3 127848000 127871999 B15971_orphan_reads.fa;172[F35|R6],D16157-14_orphan_reads.fa;183[F6|R13],14892_orphan_reads.fa;229[F19|R16],USP19283_orphan_reads.fa;336[F10|R6],D15927-14_orphan_reads.fa;176[F11|R10],1007,1007 46 1007 1658
(...)'
# Print the match result
str.scan(re) do |match|
puts match.to_s
end
Please keep in mind that these code samples are automatically generated and are not guaranteed to work. If you find any syntax errors, feel free to submit a bug report. For a full regex reference for Ruby, please visit: http://ruby-doc.org/core-2.2.0/Regexp.html