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MQRSPLEKASVVSKLFFSWTRPILRKGYRQRLELSDIYQIPSVDSADNLSEKLEREWDRELASKKNPKLI
+NALRRCFFWRFMFYGIFLYLGEVTKAVQPLLLGRIIASYDPDNKEERSIAIYLGIGLCLLFIVRTLLLH
+PAIFGLHHIGMQMRIAMFSLIYKKTLKLSSRVLDKISIGQLVSLLSNNLNKFDEGLALAHFVWIAPLQV
+ALLMGLIWELLQASAFCGLGFLIVLALFQAGLGRMMMKYRDQRAGKISERLVITSEMIENIQSVKAYCW
+EEAMEKMIENLRQTELKLTRKAAYVRYFNSSAFFFSGFFVVFLSVLPYALIKGIILRKIFTTISFCIVL
+RMAVTRQFPWAVQTWYDSLGAINKIQDFLQKQEYKTLEYNLTTTEVVMENVTAFWEEGFGELFEKAKQN
+NNNRKTSNGDDSLFFSNFSLLGTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGELEPSEGKIKH
+SGRISFCSQFSWIMPGTIKENIIFGVSYDEYRYRSVIKACQLEEDISKFAEKDNIVLGEGGITLSGGQR
+ARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKMEHLKKADKILILNEG
+SSYFYGTFSELQNLQPDFSSKLMGCDSFDQFSAERRNSILTETLHRFSLEGDAPVSWTETKKQSFKQTG
+EFGEKRKNSILNPINSIRKFSIVQKTPLQMNGIEEDSDEPLERRLSLVPDSEQGEAILPRISVISTGPT
+LQARRRQSVLNLMTHSVNQGQNIHRKTTASTRKVSLAPQANLTELDIYSRRLSQETGLEISEEINEEDL
+KECLFDDMESIPAVTTWNTYLRYITVHKSLIFVLIWCLVIFLAEVAASLVVLWLLGNTPLQDKGNSTHS
+RNNSYAVIITSTSSYYVFYIYVGVADTLLAMGFFRGLPLVHTLITVSKILHHKMLHSVLQAPMSTLNTL
+KAGGILNRFSKDIAILDDLLPLTIFDFIQLLLIVIGAIAVVAVLQPYIFVATVPVIVAFIMLRAYFLQT
+SQQLKQLESEGRSPIFTHLVTSLKGLWTLRAFGRQPYFETLFHKALNLHTANWFLYLSTLRWFQMRIEM
+IFVIFFIAVTFISILTTGEGEGRVGIILTLAMNIMSTLQWAVNSSIDVDSLMRSVSRVFKFIDMPTEGK
+PTKSTKPYKNGQLSKVMIIENSHVKKDDIWPSGGQMTVKDLTAKYTEGGNAILENISFSISPGQRVGLL
+GRTGSGKSTLLSAFLRLLNTEGEIQIDGVSWDSITLQQWRKAFGVIPQKVFIFSGTFRKNLDPYEQWSD
+QEIWKVADEVGLRSVIEQFPGKLDFVLVDGGCVLSHGHKQLMCLARSVLSKAKILLLDEPSAHLDPVTY
+QIIRRTLKQAFADCTVILCEHRIEAMLECQQFLVIEENKVRQYDSIQKLLNERSLFRQAISPSDRVKLF
+PHRNSSKCKSKPQIAALKEETEEEVQDTRL.

QRPEKASKSTRPRKGRQREDQPADEKEREREAKKPKARRRGGETKAQPGRADPNKEERAGGRTHPAGHGQ
+RAKKTKSRKGQNNNKEGAAAPQAGEQAAGGAQAGGRKRQRAGKERTEEQKAEEAEKENRQTEKTRKAAR
+SAGPAKGRKTTRATRQPAQTDGANKQQKQEKTENTTTEETAEEGGEEKAKQNNRKTGDSGTPKKERGQA
+AGTGAGKTGEEPEGKKHGRQPGTKEGERRSKAQEEDKAEKDGEGGTGGQRARARAKADPGTEKEESKAN
+KTRTKEKKADKEGSSGTEQQPDSKGDQAERRTETHREGAPTETKKQKQTGEGEKRKPNRKQKTPQGEEE
+PERRPEQGEAPRSSTGPTQARRRQNTHNQGQNHRKTTATRKAPQANTERRQETGEEENEEDKEESPATT
+NTRTHKSAEAAGNTPQDKGTRNSATSTGADTAGRGPTTKHHKQAPTNTKAGGRKADPTDQGAAAQPATP
+ARAQTQQKQEEGRPTTSKGTRAGRQPETHKATANTRQREATTTGEGEGRGTATQANSSRSRKDPTEGKP
+TKTKPKGQKEHKKDPGGQTKTAKTEGGAENPGQRGGRTGGKTARNTEGEQGTQQRKAGPQKGTRKNPEQ
+QEKAEGREQPGKDGGSGHKQARKAKEPAPTQRRTKQAATEHREAEQQEENKRQQKNERSRQASPDRKPH
+RNSKKKPQAAKEETEEEQTR

#!/usr/bin/perl 

...
TR), mRNA
__DATA__
AUGCAGAGGUCGCCUCUGGAAAAGGCCAGCGUUGUCUCCAAACUUUUUUUCAGCUGGACCAGACCAAUUU
+UGAGGAAAGGAUACAGACAGCGCCUGGAAUUGUCAGACAUAUACCAAAUCCCUUCUGUUGAUUCUGCUG
+ACAAUCUAUCUGAAAAAUUGGAAAGAGAAUGGGAUAGAGAGCUGGCUUCAAAGAAAAAUCCUAAACUCA
+UUAAUGCCCUUCGGCGAUGUUUUUUCUGGAGAUUUAUGUUCUAUGGAAUCUUUUUAUAUUUAGGGGAAG
+UCACCAAAGCAGUACAGCCUCUCUUACUGGGAAGAAUCAUAGCUUCCUAUGACCCGGAUAACAAGGAGG
+AACGCUCUAUCGCGAUUUAUCUAGGCAUAGGCUUAUGCCUUCUCUUUAUUGUGAGGACACUGCUCCUAC
+ACCCAGCCAUUUUUGGCCUUCAUCACAUUGGAAUGCAGAUGAGAAUAGCUAUGUUUAGUUUGAUUUAUA
+AGAAGACUUUAAAGCUGUCAAGCCGUGUUCUAGAUAAAAUAAGUAUUGGACAACUUGUUAGUCUCCUUU
+CCAACAACCUGAACAAAUUUGAUGAAGGACUUGCAUUGGCACAUUUCGUGUGGAUCGCUCCUUUGCAAG
+UGGCACUCCUCAUGGGGCUAAUCUGGGAGUUGUUACAGGCGUCUGCCUUCUGUGGACUUGGUUUCCUGA
+UAGUCCUUGCCCUUUUUCAGGCUGGGCUAGGGAGAAUGAUGAUGAAGUACAGAGAUCAGAGAGCUGGGA
+AGAUCAGUGAAAGACUUGUGAUUACCUCAGAAAUGAUUGAAAAUAUCCAAUCUGUUAAGGCAUACUGCU
+GGGAAGAAGCAAUGGAAAAAAUGAUUGAAAACUUAAGACAAACAGAACUGAAACUGACUCGGAAGGCAG
+CCUAUGUGAGAUACUUCAAUAGCUCAGCCUUCUUCUUCUCAGGGUUCUUUGUGGUGUUUUUAUCUGUGC
+UUCCCUAUGCACUAAUCAAAGGAAUCAUCCUCCGGAAAAUAUUCACCACCAUCUCAUUCUGCAUUGUUC
+UGCGCAUGGCGGUCACUCGGCAAUUUCCCUGGGCUGUACAAACAUGGUAUGACUCUCUUGGAGCAAUAA
+ACAAAAUACAGGAUUUCUUACAAAAGCAAGAAUAUAAGACAUUGGAAUAUAACUUAACGACUACAGAAG
+UAGUGAUGGAGAAUGUAACAGCCUUCUGGGAGGAGGGAUUUGGGGAAUUAUUUGAGAAAGCAAAACAAA
+ACAAUAACAAUAGAAAAACUUCUAAUGGUGAUGACAGCCUCUUCUUCAGUAAUUUCUCACUUCUUGGUA
+CUCCUGUCCUGAAAGAUAUUAAUUUCAAGAUAGAAAGAGGACAGUUGUUGGCGGUUGCUGGAUCCACUG
+GAGCAGGCAAGACUUCACUUCUAAUGAUGAUUAUGGGAGAACUGGAGCCUUCAGAGGGUAAAAUUAAGC
+ACAGUGGAAGAAUUUCAUUCUGUUCUCAGUUUUCCUGGAUUAUGCCUGGCACCAUUAAAGAAAAUAUCA
+UCUUUGGUGUUUCCUAUGAUGAAUAUAGAUACAGAAGCGUCAUCAAAGCAUGCCAACUAGAAGAGGACA
+UCUCCAAGUUUGCAGAGAAAGACAAUAUAGUUCUUGGAGAAGGUGGAAUCACACUGAGUGGAGGUCAAC
+GAGCAAGAAUUUCUUUAGCAAGAGCAGUAUACAAAGAUGCUGAUUUGUAUUUAUUAGACUCUCCUUUUG
+GAUACCUAGAUGUUUUAACAGAAAAAGAAAUAUUUGAAAGCUGUGUCUGUAAACUGAUGGCUAACAAAA
+CUAGGAUUUUGGUCACUUCUAAAAUGGAACAUUUAAAGAAAGCUGACAAAAUAUUAAUUUUGAAUGAAG
+GUAGCAGCUAUUUUUAUGGGACAUUUUCAGAACUCCAAAAUCUACAGCCAGACUUUAGCUCAAAACUCA
+UGGGAUGUGAUUCUUUCGACCAAUUUAGUGCAGAAAGAAGAAAUUCAAUCCUAACUGAGACCUUACACC
+GUUUCUCAUUAGAAGGAGAUGCUCCUGUCUCCUGGACAGAAACAAAAAAACAAUCUUUUAAACAGACUG
+GAGAGUUUGGGGAAAAAAGGAAGAAUUCUAUUCUCAAUCCAAUCAACUCUAUACGAAAAUUUUCCAUUG
+UGCAAAAGACUCCCUUACAAAUGAAUGGCAUCGAAGAGGAUUCUGAUGAGCCUUUAGAGAGAAGGCUGU
+CCUUAGUACCAGAUUCUGAGCAGGGAGAGGCGAUACUGCCUCGCAUCAGCGUGAUCAGCACUGGCCCCA
+CGCUUCAGGCACGAAGGAGGCAGUCUGUCCUGAACCUGAUGACACACUCAGUUAACCAAGGUCAGAACA
+UUCACCGAAAGACAACAGCAUCCACACGAAAAGUGUCACUGGCCCCUCAGGCAAACUUGACUGAACUGG
+AUAUAUAUUCAAGAAGGUUAUCUCAAGAAACUGGCUUGGAAAUAAGUGAAGAAAUUAACGAAGAAGACU
+UAAAGGAGUGCCUUUUUGAUGAUAUGGAGAGCAUACCAGCAGUGACUACAUGGAACACAUACCUUCGAU
+AUAUUACUGUCCACAAGAGCUUAAUUUUUGUGCUAAUUUGGUGCUUAGUAAUUUUUCUGGCAGAGGUGG
+CUGCUUCUUUGGUUGUGCUGUGGCUCCUUGGAAACACUCCUCUUCAAGACAAAGGGAAUAGUACUCAUA
+GUAGAAAUAACAGCUAUGCAGUGAUUAUCACCAGCACCAGUUCGUAUUAUGUGUUUUACAUUUACGUGG
+GAGUAGCCGACACUUUGCUUGCUAUGGGAUUCUUCAGAGGUCUACCACUGGUGCAUACUCUAAUCACAG
+UGUCGAAAAUUUUACACCACAAAAUGUUACAUUCUGUUCUUCAAGCACCUAUGUCAACCCUCAACACGU
+UGAAAGCAGGUGGGAUUCUUAAUAGAUUCUCCAAAGAUAUAGCAAUUUUGGAUGACCUUCUGCCUCUUA
+CCAUAUUUGACUUCAUCCAGUUGUUAUUAAUUGUGAUUGGAGCUAUAGCAGUUGUCGCAGUUUUACAAC
+CCUACAUCUUUGUUGCAACAGUGCCAGUGAUAGUGGCUUUUAUUAUGUUGAGAGCAUAUUUCCUCCAAA
+CCUCACAGCAACUCAAACAACUGGAAUCUGAAGGCAGGAGUCCAAUUUUCACUCAUCUUGUUACAAGCU
+UAAAAGGACUAUGGACACUUCGUGCCUUCGGACGGCAGCCUUACUUUGAAACUCUGUUCCACAAAGCUC
+UGAAUUUACAUACUGCCAACUGGUUCUUGUACCUGUCAACACUGCGCUGGUUCCAAAUGAGAAUAGAAA
+UGAUUUUUGUCAUCUUCUUCAUUGCUGUUACCUUCAUUUCCAUUUUAACAACAGGAGAAGGAGAAGGAA
+GAGUUGGUAUUAUCCUGACUUUAGCCAUGAAUAUCAUGAGUACAUUGCAGUGGGCUGUAAACUCCAGCA
+UAGAUGUGGAUAGCUUGAUGCGAUCUGUGAGCCGAGUCUUUAAGUUCAUUGACAUGCCAACAGAAGGUA
+AACCUACCAAGUCAACCAAACCAUACAAGAAUGGCCAACUCUCGAAAGUUAUGAUUAUUGAGAAUUCAC
+ACGUGAAGAAAGAUGACAUCUGGCCCUCAGGGGGCCAAAUGACUGUCAAAGAUCUCACAGCAAAAUACA
+CAGAAGGUGGAAAUGCCAUAUUAGAGAACAUUUCCUUCUCAAUAAGUCCUGGCCAGAGGGUGGGCCUCU
+UGGGAAGAACUGGAUCAGGGAAGAGUACUUUGUUAUCAGCUUUUUUGAGACUACUGAACACUGAAGGAG
+AAAUCCAGAUCGAUGGUGUGUCUUGGGAUUCAAUAACUUUGCAACAGUGGAGGAAAGCCUUUGGAGUGA
+UACCACAGAAAGUAUUUAUUUUUUCUGGAACAUUUAGAAAAAACUUGGAUCCCUAUGAACAGUGGAGUG
+AUCAAGAAAUAUGGAAAGUUGCAGAUGAGGUUGGGCUCAGAUCUGUGAUAGAACAGUUUCCUGGGAAGC
+UUGACUUUGUCCUUGUGGAUGGGGGCUGUGUCCUAAGCCAUGGCCACAAGCAGUUGAUGUGCUUGGCUA
+GAUCUGUUCUCAGUAAGGCGAAGAUCUUGCUGCUUGAUGAACCCAGUGCUCAUUUGGAUCCAGUAACAU
+ACCAAAUAAUUAGAAGAACUCUAAAACAAGCAUUUGCUGAUUGCACAGUAAUUCUCUGUGAACACAGGA
+UAGAAGCAAUGCUGGAAUGCCAACAAUUUUUGGUCAUAGAAGAGAACAAAGUGCGGCAGUACGAUUCCA
+UCCAGAAACUGCUGAACGAGAGGAGCCUCUUCCGGCAAGCCAUCAGCCCCUCCGACAGGGUGAAGCUCU
+UUCCCCACCGGAACUCAAGCAAGUGCAAGUCUAAGCCCCAGAUUGCUGCUCUGAAAGAGGAGACAGAAG
+AAGAGGUGCAAGAUACAAGGCUUUAG