ken@titan ~/tmp/pm_11145943
$ ls -l
total 8
-rwxr-xr-x 1 ken None 976 Aug  5 08:26 fasta_munge.pl
-rw-r--r-- 1 ken None 257 Aug  5 08:28 one.fasta
-rw-r--r-- 1 ken None  23 Aug  5 05:32 one.txt
-rw-r--r-- 1 ken None 402 Aug  5 08:28 two.fasta
-rw-r--r-- 1 ken None  23 Aug  5 05:35 two.txt

ken@titan ~/tmp/pm_11145943
$ cat one.fasta
>one:VFG000033(gb|WP_002208793)
PGRTPGVERVAHRDDDEHSWHLYAIRIHPQAPLKCDDFIVRMTENGIGCSVHYVPLHLQP
YWRDRYGLTPDMYPHSQAAFEGMASLPIYSRMTDADVQRVIASVRQLLRP
>one:VFG000036(gb|NP_490509)
ALLISLMALGVKAGDEVITTSFTFVATAEVIALLGAKPVFVDVEPDTCNIKVSEIEAKIT
PRTKAIIPVSLYGQCGDMDEV

ken@titan ~/tmp/pm_11145943
$ cat one.txt
WP_002208793
NP_490509

ken@titan ~/tmp/pm_11145943
$ cat two.fasta
>two:VFG000033(gb|WP_002208793)
PGRTPGVERVAHRDDDEHSWHLYAIRIHPQAPLKCDDFIVRMTENGIGCSVHYVPLHLQP
YWRDRYGLTPDMYPHSQAAFEGMASLPIYSRMTDADVQRVIASVRQLLRP
>two:VFG000032(gb|WP_002208792)
PGRTPGVERVAHRDDDEHSWHLYAIRIHPQAPLKCDDFIVRMTENGIGCSVHYVPLHLQP
YWRDRYGLTPDMYPHSQAAFEGMASLPIYSRMTDADVQRVIASVRQLLRP
>two:VFG000036(gb|NP_490509)
ALLISLMALGVKAGDEVITTSFTFVATAEVIALLGAKPVFVDVEPDTCNIKVSEIEAKIT
PRTKAIIPVSLYGQCGDMDEV

ken@titan ~/tmp/pm_11145943
$ cat two.txt
WP_002208792
NP_490509

ken@titan ~/tmp/pm_11145943
$ ./fasta_munge.pl

ken@titan ~/tmp/pm_11145943
$ ls -l
total 11
-rwxr-xr-x 1 ken None 976 Aug  5 08:26 fasta_munge.pl
-rw-r--r-- 1 ken None 224 Aug  5 08:31 NP_490509.fasta
-rw-r--r-- 1 ken None 257 Aug  5 08:28 one.fasta
-rw-r--r-- 1 ken None  23 Aug  5 05:32 one.txt
-rw-r--r-- 1 ken None 402 Aug  5 08:28 two.fasta
-rw-r--r-- 1 ken None  23 Aug  5 05:35 two.txt
-rw-r--r-- 1 ken None 145 Aug  5 08:31 WP_002208792.fasta
-rw-r--r-- 1 ken None 145 Aug  5 08:31 WP_002208793.fasta

ken@titan ~/tmp/pm_11145943
$ cat NP_490509.fasta
>one:VFG000036(gb|NP_490509)
ALLISLMALGVKAGDEVITTSFTFVATAEVIALLGAKPVFVDVEPDTCNIKVSEIEAKIT
PRTKAIIPVSLYGQCGDMDEV
>two:VFG000036(gb|NP_490509)
ALLISLMALGVKAGDEVITTSFTFVATAEVIALLGAKPVFVDVEPDTCNIKVSEIEAKIT
PRTKAIIPVSLYGQCGDMDEV

ken@titan ~/tmp/pm_11145943
$ cat WP_002208792.fasta
>two:VFG000032(gb|WP_002208792)
PGRTPGVERVAHRDDDEHSWHLYAIRIHPQAPLKCDDFIVRMTENGIGCSVHYVPLHLQP
YWRDRYGLTPDMYPHSQAAFEGMASLPIYSRMTDADVQRVIASVRQLLRP

ken@titan ~/tmp/pm_11145943
$ cat WP_002208793.fasta
>one:VFG000033(gb|WP_002208793)
PGRTPGVERVAHRDDDEHSWHLYAIRIHPQAPLKCDDFIVRMTENGIGCSVHYVPLHLQP
YWRDRYGLTPDMYPHSQAAFEGMASLPIYSRMTDADVQRVIASVRQLLRP

ken@titan ~/tmp/pm_11145943
$