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Top Forums Shell Programming and Scripting Getting the non-homogenous letter row from a text file Post 302818767 by Lucky Ali on Sunday 9th of June 2013 09:30:09 AM
Old 06-09-2013
Alphabet counting

Thanks That worked.
I would like to get another awk solution. I have a file with the following format

Code:
CCCCCGCCCCCCCCCCcCCCCCCCCCCCCCCC
AAAATAAAAAAAAAAAaAAAAAAAAAAAAAAA
TGTTTTTTTTTTTTGGtTTTTTTTTTTTTTTT
TTTT-TTTTTTTTTCTtTTTTTTTTTTTTTTT

Each row/line will have 32 letters and each line will only have multiple occurrences of 2 or more letters out of a pool of ATGC (also small atgc). some may have also '-'. I would like to count the occurrence of each alphabet in a line and output the position number/ numbers of all the counted alphabet.

Desired output is
Code:
CCCCCGCCCCCCCCCCcCCCCCCCCCCCCCCC C 1 2 3 4 5 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 G 6
AAAATAAAAAAAAAAAaAAAAAAAAAAAAAAA A 1 2 3 4 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32   T 5
TGTTTTTTTTTTTTGGtTTTTTTTTTTTTTTT T 1 3 4 5 7 8 9 10 11 12 13 14 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32  G 2 15 16 
TTTT-TTTTTTTTTCTtTTTTTTTTTTTTTTT T 1 2 3 4 6 7 8 9 10 11 12 13 14 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 C 15

Please let me know the best way to do this in awk.

---------- Post updated at 09:30 AM ---------- Previous update was at 05:41 AM ----------

Is there a way to do it in either perl or awk??? looking forward to see suggestions
 

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Locale::Codes::LangVar(3pm)				 Perl Programmers Reference Guide			       Locale::Codes::LangVar(3pm)

NAME
Locale::Codes::LangVar - standard codes for language variation identification SYNOPSIS
use Locale::Codes::LangVar; $lvar = code2langvar('acm'); # $lvar gets 'Mesopotamian Arabic' $code = langvar2code('Mesopotamian Arabic'); # $code gets 'acm' @codes = all_langvar_codes(); @names = all_langvar_names(); DESCRIPTION
The "Locale::Codes::LangVar" module provides access to standard codes used for identifying language variations, such as those as defined in the IANA language registry. Most of the routines take an optional additional argument which specifies the code set to use. If not specified, the default IANA language registry codes will be used. SUPPORTED CODE SETS
There are several different code sets you can use for identifying language variations. A code set may be specified using either a name, or a constant that is automatically exported by this module. For example, the two are equivalent: $lvar = code2langvar('en','alpha-2'); $lvar = code2langvar('en',LOCALE_CODE_ALPHA_2); The codesets currently supported are: alpha This is the set of alphanumeric codes from the IANA language registry, such as 'arevela' for Eastern Armenian. This code set is identified with the symbol "LOCALE_LANGVAR_ALPHA". This is the default code set. ROUTINES
code2langvar ( CODE [,CODESET] ) langvar2code ( NAME [,CODESET] ) langvar_code2code ( CODE ,CODESET ,CODESET2 ) all_langvar_codes ( [CODESET] ) all_langvar_names ( [CODESET] ) Locale::Codes::LangVar::rename_langvar ( CODE ,NEW_NAME [,CODESET] ) Locale::Codes::LangVar::add_langvar ( CODE ,NAME [,CODESET] ) Locale::Codes::LangVar::delete_langvar ( CODE [,CODESET] ) Locale::Codes::LangVar::add_langvar_alias ( NAME ,NEW_NAME ) Locale::Codes::LangVar::delete_langvar_alias ( NAME ) Locale::Codes::LangVar::rename_langvar_code ( CODE ,NEW_CODE [,CODESET] ) Locale::Codes::LangVar::add_langvar_code_alias ( CODE ,NEW_CODE [,CODESET] ) Locale::Codes::LangVar::delete_langvar_code_alias ( CODE [,CODESET] ) These routines are all documented in the Locale::Codes::API man page. SEE ALSO
Locale::Codes The Locale-Codes distribution. Locale::Codes::API The list of functions supported by this module. http://www.iana.org/assignments/language-subtag-registry The IANA language subtag registry. AUTHOR
See Locale::Codes for full author history. Currently maintained by Sullivan Beck (sbeck@cpan.org). COPYRIGHT
Copyright (c) 2011-2013 Sullivan Beck This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.18.2 2014-01-06 Locale::Codes::LangVar(3pm)
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