The sample input is: 

>101M:A:sequence
MVLSEGEWQLVLHVWAKVEADVAGHGQDILIRLFKSHPETLEKFDRVKHLKTEAEMKASEDLKKHGVTVL
+TALGA
ILKKKGHHEAELKPLAQSHATKHKIPIKYLEFISEAIIHVLHSRHPGNFGADAQGAMNKALELFRKDIAA
+KYKEL
GYQG                                            

>101M:A:secstr
    HHHHHHHHHHHHHHGGGHHHHHHHHHHHHHHH GGGGGG TTTTT  SHHHHHH HHHHHHHHHHH
+HHHHH
HHTTTT  HHHHHHHHHHHHHTS   HHHHHHHHHHHHHHHHHH GGG SHHHHHHHHHHHHHHHHHHHH
+HHHHT
T

>102L:A:sequence
MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAAKSELDKAIGRNTNGVITKDEAEKLFNQ
+DVDAA
VRGILRNAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPN
+RAKRV
ITTFRTGTWDAYKNL

>102L:A:secstr
  HHHHHHHHH  EEEEEE TTS EEEETTEEEESSS TTTHHHHHHHHHHTS  TTB  HHHHHHHHHH
+HHHHH
HHHHHH TTHHHHHHHS HHHHHHHHHHHHHHHHHHHHT HHHHHHHHTT HHHHHHHHHSSHHHHHSHH
+HHHHH
HHHHHHSSSGGG

[download]

The first output should be all protein fasta sequences like: 

>101M:A:sequence
MVLSEGEWQLVLHVWAKVEADVAGHGQDILIRLFKSHPETLEKFDRVKHLKTEAEMKASEDLKKHGVTVL
+TALGA
ILKKKGHHEAELKPLAQSHATKHKIPIKYLEFISEAIIHVLHSRHPGNFGADAQGAMNKALELFRKDIAA
+KYKEL
GYQG

>102L:A:sequence
MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAAKSELDKAIGRNTNGVITKDEAEKLFNQ
+DVDAA
VRGILRNAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPN
+RAKRV
ITTFRTGTWDAYKNL

[download]

The second Output file should hav secondary structures: 

>101M:A:secstr
    HHHHHHHHHHHHHHGGGHHHHHHHHHHHHHHH GGGGGG TTTTT  SHHHHHH HHHHHHHHHHH
+HHHHH
HHTTTT  HHHHHHHHHHHHHTS   HHHHHHHHHHHHHHHHHH GGG SHHHHHHHHHHHHHHHHHHHH
+HHHHT
T

>102L:A:secstr
  HHHHHHHHH  EEEEEE TTS EEEETTEEEESSS TTTHHHHHHHHHHTS  TTB  HHHHHHHHHH
+HHHHH
HHHHHH TTHHHHHHHS HHHHHHHHHHHHHHHHHHHHT HHHHHHHHTT HHHHHHHHHSSHHHHHSHH
+HHHHH
HHHHHHSSSGGG

[download]
Thanks..

In reply to Re^2: How to match the sequences with headers by anonym
in thread How to match the sequences with headers by anonym

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