!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQR S T U V W X Y Z [ \ ] ^ _ ` a b c d e f g h i j k l m n o p q r s t u v w x y z { | } ~  SafeXA clone is a collection of sequences derived from a germline with a specific identifier      None Parse a standard fasta file intoParse a CLIP fasta file intoattopares any char but space"attoparsec parser for a fasta type"attoparsec parser for a fasta file+attoparsec parser for a CLIP fasta sequence"attoparsec parser for a fasta fileParse a standard fasta file+Parse a CLIP fasta file into text sequences'Parse a standard fasta file into a pipe=Parse a CLIP fasta file into strict text sequences for pipes.(Remove Ns from a collection of sequencesRemove Ns from a sequence3Remove Ns from a collection of CLIP fasta sequences  Safe#Lazy ByteString version of chunksOf<Converts a codon to an amino acid Remember, if there is an NM in that DNA sequence, then it is translated as an X, an unknown amino acid.&Translate a codon using a custom table Translates a bytestring of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a bytestring with the error if the codon is invalid. Also has customized codon translations as well overriding the defaults.Translates a bytestring of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a bytestring with the error if the codon is invalid.SafeXA clone is a collection of sequences derived from a germline with a specific identifier  !"#$%&'(  !"#$%&' $%&'#"! ( !"#$%&'(None,/Parse a standard fasta file into text sequences-+Parse a CLIP fasta file into text sequencesattopares any char but space"attoparsec parser for a fasta type"attoparsec parser for a fasta file+attoparsec parser for a CLIP fasta sequence"attoparsec parser for a fasta file.Parse a standard fasta file/+Parse a CLIP fasta file into text sequences0Parse a standard fasta file into strict text sequences for pipes. This is the highly recommeded way of parsing, as it is computationally fast and uses memory based on line length1=Parse a CLIP fasta file into strict text sequences for pipes.2(Remove Ns from a collection of sequences3Remove Ns from a sequence43Remove Ns from a collection of CLIP fasta sequences,-./01234 ,-./01234 ,-./01234,-./01234Safe5ByteString version of chunksOf6<Converts a codon to an amino acid Remember, if there is an NM in that DNA sequence, then it is translated as an X, an unknown amino acid.7&Translate a codon using a custom table8 Translates a bytestring of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a bytestring with the error if the codon is invalid. Also has customized codon translations as well overriding the defaults.9Translates a bytestring of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a bytestring with the error if the codon is invalid.56789567895679856789Safe<XA clone is a collection of sequences derived from a germline with a specific identifier :;<=>?@ABCDE :;<=>?@ABCD ABCD@?>=<:;E:;<=>?@ABCDENoneIParse a standard fasta fileJParse a CLIP fasta fileattopares any char but space"attoparsec parser for a fasta type"attoparsec parser for a fasta file+attoparsec parser for a CLIP fasta sequence"attoparsec parser for a fasta fileKParse a standard fasta fileLParse a CLIP fasta fileM'Parse a standard fasta file into a pipeN#Parse a CLIP fasta file into a pipeO(Remove Ns from a collection of sequencesPRemove Ns from a sequenceQ3Remove Ns from a collection of CLIP fasta sequencesIJKLMNOPQ IJKLMNOPQ IJKLMNOPQIJKLMNOPQ SafeR<Converts a codon to an amino acid Remember, if there is an NM in that DNA sequence, then it is translated as an X, an unknown amino acid.S&Translate a codon using a custom tableTTranslates a text of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a text with the error if the codon is invalid. Also has customized codon translations as well overriding the defaults.UTranslates a text of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a text with the error if the codon is invalid.RSTURSTURSUTRSTU SafeXXA clone is a collection of sequences derived from a germline with a specific identifier VWXYZ[\]^_`a VWXYZ[\]^_` ]^_`\[ZYXVWaVWXYZ[\]^_`a NoneeParse a standard fasta filefParse a CLIP fasta fileattopares any char but space"attoparsec parser for a fasta type"attoparsec parser for a fasta file+attoparsec parser for a CLIP fasta sequence"attoparsec parser for a fasta filegParse a standard fasta filehParse a CLIP fasta filei'Parse a standard fasta file into a pipej#Parse a CLIP fasta file into a pipek(Remove Ns from a collection of sequenceslRemove Ns from a sequencem3Remove Ns from a collection of CLIP fasta sequencesefghijklm efghijklm efghijklmefghijklm Safen<Converts a codon to an amino acid Remember, if there is an NM in that DNA sequence, then it is translated as an X, an unknown amino acid.o&Translate a codon using a custom tablepTranslates a text of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a text with the error if the codon is invalid. Also has customized codon translations as well overriding the defaults.qTranslates a text of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a text with the error if the codon is invalid.nopqnopqnoqpnopq SafetXA clone is a collection of sequences derived from a germline with a specific identifier rstuvwxyz{|} rstuvwxyz{| yz{|xwvutrs}rstuvwxyz{|}Safe1Parse a standard fasta file into string sequences-Parse a CLIP fasta file into string sequencesParse a standard fasta file into string sequences for pipes. This is the highly recommeded way of parsing, as it is computationally fast and uses constant file memory(Remove Ns from a collection of sequencesRemove Ns from a sequence3Remove Ns from a collection of CLIP fasta sequences  Safe<Converts a codon to an amino acid Remember, if there is an NM in that DNA sequence, then it is translated as an X, an unknown amino acid.&Translate a codon using a custom tableTranslates a string of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a string with the error if the codon is invalid. Also has customized codon translations as well overriding the defaults.Translates a string of nucleotides given a reading frame (1, 2, or 3) -- drops the first 0, 1, or 2 nucleotides respectively. Returns a string with the error if the codon is invalid.SafeIDefines the rules for complement. Unknown characters are left untouched.SafeVGets a 1 indexed field from the header of a fasta sequence using a certain delimiter.$Gets the complement of the sequence.,Gets the reverse complement of the sequence.Saferstuvwxyz{|SafeVGets a 1 indexed field from the header of a fasta sequence using a certain delimiter.$Gets the complement of the sequence.,Gets the reverse complement of the sequence.NoneVWXYZ[\]^_`efghijklmnopqSafeVGets a 1 indexed field from the header of a fasta sequence using a certain delimiter.$Gets the complement of the sequence.,Gets the reverse complement of the sequence.None:;<=>?@ABCDIJKLMNOPQRSTUSafeVGets a 1 indexed field from the header of a fasta sequence using a certain delimiter.$Gets the complement of the sequence.,Gets the reverse complement of the sequence.None !"#$%&',-./0123456789SafeVGets a 1 indexed field from the header of a fasta sequence using a certain delimiter.$Gets the complement of the sequence.,Gets the reverse complement of the sequence.None Safe+Returns the hydrophobicity of an amino acid !"##$%&'()*+,-./01234567 !"##$%&'()*+,-./01234567 !"##$%&'()*+,-./012 4 5 6 7      ! " # # $ % & ' ( ) * + , - . / 0 1 2 4 5 6 7      ! " # # $ % & ' ( )89.0124567:;<=;<=;<=;<=;<=>?@ABCDEFGHIJKLMNOPQRGHIJKLMNOPQRGHIJKLMNOPQR G H I J K L M N O P Q RLMNOPQS%fasta-0.10.4.0-DussrOWb3Fs77866gD5aBO Data.Fasta.ByteString.Lazy.Types Data.Fasta.ByteString.Lazy.Parse&Data.Fasta.ByteString.Lazy.TranslationData.Fasta.ByteString.TypesData.Fasta.ByteString.Parse!Data.Fasta.ByteString.TranslationData.Fasta.Text.Lazy.TypesData.Fasta.Text.Lazy.Parse Data.Fasta.Text.Lazy.TranslationData.Fasta.Text.TypesData.Fasta.Text.ParseData.Fasta.Text.TranslationData.Fasta.String.TypesData.Fasta.String.ParseData.Fasta.String.TranslationData.Fasta.UtilityData.Fasta.String.UtilityData.Fasta.Text.UtilityData.Fasta.Text.Lazy.UtilityData.Fasta.ByteString.Utility"Data.Fasta.ByteString.Lazy.UtilityData.Fasta.CategoryData.Fasta.StringData.Fasta.TextData.Fasta.Text.LazyData.Fasta.ByteStringData.Fasta.ByteString.Lazy ShowFasta showFastaCloneMapGermlineCloneAACodon FastaSequence fastaHeaderfastaSeq$fShowFastaFastaSequence$fEqFastaSequence$fOrdFastaSequence$fShowFastaSequence parsecFastaparsecCLIPFasta attoFasta attoCLIPFasta pipesFastapipesCLIPFastaremoveNsremoveN removeCLIPNschunksOfcodon2aacustomCodon2aacustomTranslate translate parseFastaparseCLIPFasta complRulesgetFieldcomplrevComplHydrophobicity HydrophobicNeutral HydrophilicaaToHydrophobicity$fEqHydrophobicity$fOrdHydrophobicity$fReadHydrophobicity$fShowHydrophobicity anyButSpacefasta' fastaFile' fastaCLIP'fastaCLIPFile'eoleoefasta fastaFile fastaCLIP fastaCLIPFileclone'