UNIX for Dummies Questions & Answers

thanks for posting..
but if u have one file like that
>gi|62859953|ref|NP_001017322.1| plexin B2 [Xenopus tropicalis]
MKEKERTKAITEIYLTRLLSVKGTLQQFVDNFFQSVLNSNQVVPPAVKYFFDFLDEQAEKYEIKDEDTVHIWKTNSLSLR
FWVNILKNPHFIFDVHVHQVVDASLSVIAQTFMDACSRTEHKLSRESPSNKLLYAKEISTYKKMVEDYYKGIRQMVQVSD
QDMNTHLAEISRAHTESLNTLVALHQLYQYTNKYYDEIINALEEDPAAQRMQLAYRLQQIAAALENKVTDL
>gi|62859377|ref|NP_001016112.1| O-sialoglycoprotein endopeptidase [Xenopus tropicalis]^Agi|111305744|gb|AAI21531.1| O-sialoglycoprotein endopeptidase [Xenopus tropicalis]
MTIVVGFEGSANKIGVGIIQDGKVLSNPRRTYITPPGQGFMPSDTARHHRSCILDVLQEALEEAKIKPQDVDCVAYTKGP
GMGAPLLSVAIVARTVAQLWKKPLLGVNHCIGHIEMGRLITGAENPSVLYVSGGNTQVIAYSERCYRIFGETIDIAVGNC
LDRFARVLKISNDPSPGYNIEQMAKKGKKFVELPYTVKGMDVSFSGILSYIEDMSHKMLSSGECTPEDLCFSLQETLFSM
LVEITERAMAHCGSQEVLIVGGVGCNVRLQEMMGVMCQERGAKLFATDERFCIDNGAMIAQAGWEMFRSGQVTNLQDSWI
TQRYRTDEVEVTWRD
continuing.....
As first file contains full list of all..........


and another 2nd file like that......
>gb|AAI30281.1| ABCA8 protein [Homo sapiens]
>ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5 [Pan troglodytes]
>ref|XP_001082492.1| PREDICTED: similar to ATP-binding cassette, sub-family A member 8[Macaca mulatta]
>ref|XP_001165871.1| PREDICTED: similar to KIAA0822 protein isoform 2 [Pan troglodytes]
>ref|XP_001494133.1| PREDICTED: similar to ABCA8 protein [Equus caballus]
continuing.......


while taking second file to search for in the first file
u shud have a output like this
>gb|AAI30281.1| ABCA8 protein [Homo sapiens]
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLL
TMDLGRVDTFNESRFSVVYTPVTNTTQQIMNKVASTPFLAGKEVLGLPDEESIKEFTANY
PEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYETNEDVYCEVSVFWKEGFVAL
QAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCIISFSSFIYYA
SVNVTRERKRMKALMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIRSTQFIILSGFM
VVFSLFLLYGLSLVALAFLMSILVKKSFLTGLVVFLLTVFWGCLGFTSLYRHLPASLEWI
LSLLSPFAFMLGMAQLLHLDYDLNSNAFPHPSDGSNLIVATNFMLAFDTCLYLALAIYFE
KILPNEYGHRRPPLFFLKSSFWSQTQKTDHVALEDEMDADPSFHDSFEQAPPEFQGKEAI
RIRNVTKEYKGKPDKIEALKDLVFDIYEGQITAILGHSGAGKSTLLNILSGLSVPTKGSV
TIYNNKLSEMADLENLSKLTGVCPQSNVQFDFLTVRENLRLFAKIKGILPQEVDKEIFLL
DEPTAGLDPFSRHQVWNLLKERKTDRVILFSTQFMDEADILADRKVFLSQGKLKCAGSSL
FLKKKWGIGYHLSLQLNEICVEENITSLVKQHIPDAKLSAKSEGKLIYTLPLERTNKFPE
>gi|114670186|ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5 [Pan troglodytes]
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLLTMDLGRVDTFNESRFSVVYT
PVTNTTQQIMNKVASIPFLAGKEVLGLPDEESIKEFTANYPEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYE
TNEDVYCEVSVFWKEGFVALQAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCLISFSSFIYYA
SVNVTRERKRMKGLMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIKSTQFIILSGFMVVFSLFLLYGLSLVALAFLM
SILVKKSFLTGLVVFLLTVFWGCLGFTSLYRHLPASLEWILSLLSPFAFMLGMAQLVHLDYDLNSNAFPHPSDGSNLIVA
>gi|109117480|ref|XP_001082492.1| PREDICTED: similar to ATP-binding cassette, sub-family A member 8 isoform 2 [Macaca mulatta]
MRKREISVCQQTWALLCKNFLKKWRMKRESLMEWLNSFLLLLCLYIYPHSHQVNDFSSLLTTDLGRVDTFNESRFSVAYT
PVTNTTQQIMNKVASAPFLAGKEVLGLPDEESIKEFTANYPEEIVRVIFTNTYSYQLKFLLGHEMPAKKEHKDHTAHCYE
TNEDVYCEVSVFWKEGFVALQAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCIISFSPFIYYA
SVNVTRERKRMKGLMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIKSTLFIILSGFMVVFSLFLLYGLSLIALAFLM
SILVKKSFLTGLVVFLLTVFWGSLGFTALYRYLPASLEWILSLLSPFAFMLGMAQLLHLDYDLNSNAFPHPLDGSNIIVA
TNFMLAFDTCLYLALAIYFEKILPNEYGHRRSPLFFLKSSFWSQTQKADHVALEDEMDADPSSHDSFEPVPPEFHGKEAI
RIRNVTKEYKGKPDKIEALKDLVFDIYEGQITAILGHSGAGKSTLLNILSGLSTPTKGSVTIYNNKLSEVADLENLSKLT

continue


Thanks if u understood and reply soon.....
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Edit/Delete Message

anyone reply plz soon.....

Please do not bump up your posts. First of all, try to understand that this is a Sunday and most regular posters are not logged in. Secondly, please explain your problem more clearly.

Is there a particular pattern in the two files that can be matched, if so, which one? Are the lines in the second file unique?

yah of course it is sunday!!!!!!
but researchers have no day it is the same ahaha

yah tht one 2 files have one in unique
tht is first line ...
i.e >gb|AAI30281.1| ABCA8 protein [Homo sapiens]......
>ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5
etc...........

so first file have list of all proteins say human,mouse all other organisms.......
with have u seen like in the first file .......in previous post......
and another file having just >gb|AAI30281.1| ABCA8 protein [Homo sapiens]....
>ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5

So searching for in first file with 2nd file as input to display the output
>gb|AAI30281.1| ABCA8 protein [Homo sapiens]
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLL
TMDLGRVDTFNESRFSVVYTPVTNTTQQIMNKVASTPFLAGKEVLGLPDEESIKEFTANY
PEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYETNEDVYCEVSVFWKEGFVAL
QAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCIISFSSFIYYA
SVNVTRERKRMKALMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIRSTQFIILSGFM
>ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLLTMDLGRVDTFNESRFSVVYT
PVTNTTQQIMNKVASIPFLAGKEVLGLPDEESIKEFTANYPEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYE
TNEDVYCEVSVFWKEGFVALQAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCLISFSSFIYYA
hope sir u understood
thanks