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  • Committer: Bazaar Package Importer
  • Author(s): Ondřej Surý
  • Date: 2011-04-20 17:36:48 UTC
  • Revision ID: james.westby@ubuntu.com-20110420173648-ifergoxyrm832trd
Tags: upstream-2011.03.07.1
Import upstream version 2011.03.07.1

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Lines of Context:
 
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>ONE Homo sapiens alu
 
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GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGA
 
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TCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACT
 
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AAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAG
 
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GCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCG
 
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CCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGT
 
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GGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCA
 
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GGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAA
 
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TTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAG
 
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AATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCA
 
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GCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGT
 
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AATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACC
 
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AGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTG
 
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GTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACC
 
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CGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAG
 
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AGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTT
 
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TGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACA
 
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TGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCT
 
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GTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGG
 
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TTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGT
 
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CTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGG
 
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CGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCG
 
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TCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTA
 
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CTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCG
 
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AGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCG
 
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GGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACC
 
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TGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAA
 
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TACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGA
 
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GGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACT
 
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GCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTC
 
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ACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGT
 
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TCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGC
 
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CGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCG
 
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CTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTG
 
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GGCGACAGAGCGAGACTCCG
 
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>TWO IUB ambiguity codes
 
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cttBtatcatatgctaKggNcataaaSatgtaaaDcDRtBggDtctttataattcBgtcg
 
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tactDtDagcctatttSVHtHttKtgtHMaSattgWaHKHttttagacatWatgtRgaaa
 
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NtactMcSMtYtcMgRtacttctWBacgaaatatagScDtttgaagacacatagtVgYgt
 
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cattHWtMMWcStgttaggKtSgaYaaccWStcgBttgcgaMttBYatcWtgacaYcaga
 
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gtaBDtRacttttcWatMttDBcatWtatcttactaBgaYtcttgttttttttYaaScYa
 
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HgtgttNtSatcMtcVaaaStccRcctDaataataStcYtRDSaMtDttgttSagtRRca
 
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tttHatSttMtWgtcgtatSSagactYaaattcaMtWatttaSgYttaRgKaRtccactt
 
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tattRggaMcDaWaWagttttgacatgttctacaaaRaatataataaMttcgDacgaSSt
 
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acaStYRctVaNMtMgtaggcKatcttttattaaaaagVWaHKYagtttttatttaacct
 
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tacgtVtcVaattVMBcttaMtttaStgacttagattWWacVtgWYagWVRctDattBYt
 
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gtttaagaagattattgacVatMaacattVctgtBSgaVtgWWggaKHaatKWcBScSWa
 
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accRVacacaaactaccScattRatatKVtactatatttHttaagtttSKtRtacaaagt
 
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RDttcaaaaWgcacatWaDgtDKacgaacaattacaRNWaatHtttStgttattaaMtgt
 
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tgDcgtMgcatBtgcttcgcgaDWgagctgcgaggggVtaaScNatttacttaatgacag
 
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cccccacatYScaMgtaggtYaNgttctgaMaacNaMRaacaaacaKctacatagYWctg
 
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ttWaaataaaataRattagHacacaagcgKatacBttRttaagtatttccgatctHSaat
 
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actcNttMaagtattMtgRtgaMgcataatHcMtaBSaRattagttgatHtMttaaKagg
 
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YtaaBataSaVatactWtataVWgKgttaaaacagtgcgRatatacatVtHRtVYataSa
 
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KtWaStVcNKHKttactatccctcatgWHatWaRcttactaggatctataDtDHBttata
 
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aaaHgtacVtagaYttYaKcctattcttcttaataNDaaggaaaDYgcggctaaWSctBa
 
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aNtgctggMBaKctaMVKagBaactaWaDaMaccYVtNtaHtVWtKgRtcaaNtYaNacg
 
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gtttNattgVtttctgtBaWgtaattcaagtcaVWtactNggattctttaYtaaagccgc
 
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tcttagHVggaYtgtNcDaVagctctctKgacgtatagYcctRYHDtgBattDaaDgccK
 
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tcHaaStttMcctagtattgcRgWBaVatHaaaataYtgtttagMDMRtaataaggatMt
 
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ttctWgtNtgtgaaaaMaatatRtttMtDgHHtgtcattttcWattRSHcVagaagtacg
 
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ggtaKVattKYagactNaatgtttgKMMgYNtcccgSKttctaStatatNVataYHgtNa
 
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BKRgNacaactgatttcctttaNcgatttctctataScaHtataRagtcRVttacDSDtt
 
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aRtSatacHgtSKacYagttMHtWataggatgactNtatSaNctataVtttRNKtgRacc
 
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tttYtatgttactttttcctttaaacatacaHactMacacggtWataMtBVacRaSaatc
 
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cgtaBVttccagccBcttaRKtgtgcctttttRtgtcagcRttKtaaacKtaaatctcac
 
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aattgcaNtSBaaccgggttattaaBcKatDagttactcttcattVtttHaaggctKKga
 
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tacatcBggScagtVcacattttgaHaDSgHatRMaHWggtatatRgccDttcgtatcga
 
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aacaHtaagttaRatgaVacttagattVKtaaYttaaatcaNatccRttRRaMScNaaaD
 
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gttVHWgtcHaaHgacVaWtgttScactaagSgttatcttagggDtaccagWattWtRtg
 
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ttHWHacgattBtgVcaYatcggttgagKcWtKKcaVtgaYgWctgYggVctgtHgaNcV
 
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taBtWaaYatcDRaaRtSctgaHaYRttagatMatgcatttNattaDttaattgttctaa
 
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ccctcccctagaWBtttHtBccttagaVaatMcBHagaVcWcagBVttcBtaYMccagat
 
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gaaaaHctctaacgttagNWRtcggattNatcRaNHttcagtKttttgWatWttcSaNgg
 
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gaWtactKKMaacatKatacNattgctWtatctaVgagctatgtRaHtYcWcttagccaa
 
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tYttWttaWSSttaHcaaaaagVacVgtaVaRMgattaVcDactttcHHggHRtgNcctt
 
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tYatcatKgctcctctatVcaaaaKaaaagtatatctgMtWtaaaacaStttMtcgactt
 
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taSatcgDataaactaaacaagtaaVctaggaSccaatMVtaaSKNVattttgHccatca
 
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cBVctgcaVatVttRtactgtVcaattHgtaaattaaattttYtatattaaRSgYtgBag
 
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aHSBDgtagcacRHtYcBgtcacttacactaYcgctWtattgSHtSatcataaatataHt
 
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cgtYaaMNgBaatttaRgaMaatatttBtttaaaHHKaatctgatWatYaacttMctctt
 
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ttVctagctDaaagtaVaKaKRtaacBgtatccaaccactHHaagaagaaggaNaaatBW
 
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attccgStaMSaMatBttgcatgRSacgttVVtaaDMtcSgVatWcaSatcttttVatag
 
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ttactttacgatcaccNtaDVgSRcgVcgtgaacgaNtaNatatagtHtMgtHcMtagaa
 
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attBgtataRaaaacaYKgtRccYtatgaagtaataKgtaaMttgaaRVatgcagaKStc
 
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tHNaaatctBBtcttaYaBWHgtVtgacagcaRcataWctcaBcYacYgatDgtDHccta
 
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>THREE Homo sapiens frequency
 
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aacacttcaccaggtatcgtgaaggctcaagattacccagagaacctttgcaatataaga
 
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atatgtatgcagcattaccctaagtaattatattctttttctgactcaaagtgacaagcc
 
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ctagtgtatattaaatcggtatatttgggaaattcctcaaactatcctaatcaggtagcc
 
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atgaaagtgatcaaaaaagttcgtacttataccatacatgaattctggccaagtaaaaaa
 
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tagattgcgcaaaattcgtaccttaagtctctcgccaagatattaggatcctattactca
 
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tatcgtgtttttctttattgccgccatccccggagtatctcacccatccttctcttaaag
 
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gcctaatattacctatgcaaataaacatatattgttgaaaattgagaacctgatcgtgat
 
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tcttatgtgtaccatatgtatagtaatcacgcgactatatagtgctttagtatcgcccgt
 
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gggtgagtgaatattctgggctagcgtgagatagtttcttgtcctaatatttttcagatc
 
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gaatagcttctatttttgtgtttattgacatatgtcgaaactccttactcagtgaaagtc
 
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atgaccagatccacgaacaatcttcggaatcagtctcgttttacggcggaatcttgagtc
 
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taacttatatcccgtcgcttactttctaacaccccttatgtatttttaaaattacgttta
 
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ttcgaacgtacttggcggaagcgttattttttgaagtaagttacattgggcagactcttg
 
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acattttcgatacgactttctttcatccatcacaggactcgttcgtattgatatcagaag
 
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ctcgtgatgattagttgtcttctttaccaatactttgaggcctattctgcgaaatttttg
 
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ttgccctgcgaacttcacataccaaggaacacctcgcaacatgccttcatatccatcgtt
 
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cattgtaattcttacacaatgaatcctaagtaattacatccctgcgtaaaagatggtagg
 
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ggcactgaggatatattaccaagcatttagttatgagtaatcagcaatgtttcttgtatt
 
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aagttctctaaaatagttacatcgtaatgttatctcgggttccgcgaataaacgagatag
 
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attcattatatatggccctaagcaaaaacctcctcgtattctgttggtaattagaatcac
 
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acaatacgggttgagatattaattatttgtagtacgaagagatataaaaagatgaacaat
 
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tactcaagtcaagatgtatacgggatttataataaaaatcgggtagagatctgctttgca
 
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attcagacgtgccactaaatcgtaatatgtcgcgttacatcagaaagggtaactattatt
 
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aattaataaagggcttaatcactacatattagatcttatccgatagtcttatctattcgt
 
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tgtatttttaagcggttctaattcagtcattatatcagtgctccgagttctttattattg
 
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ttttaaggatgacaaaatgcctcttgttataacgctgggagaagcagactaagagtcgga
 
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gcagttggtagaatgaggctgcaaaagacggtctcgacgaatggacagactttactaaac
 
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caatgaaagacagaagtagagcaaagtctgaagtggtatcagcttaattatgacaaccct
 
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taatacttccctttcgccgaatactggcgtggaaaggttttaaaagtcgaagtagttaga
 
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ggcatctctcgctcataaataggtagactactcgcaatccaatgtgactatgtaatactg
 
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ggaacatcagtccgcgatgcagcgtgtttatcaaccgtccccactcgcctggggagacat
 
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gagaccacccccgtggggattattagtccgcagtaatcgactcttgacaatccttttcga
 
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ttatgtcatagcaatttacgacagttcagcgaagtgactactcggcgaaatggtattact
 
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aaagcattcgaacccacatgaatgtgattcttggcaatttctaatccactaaagcttttc
 
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cgttgaatctggttgtagatatttatataagttcactaattaagatcacggtagtatatt
 
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gatagtgatgtctttgcaagaggttggccgaggaatttacggattctctattgatacaat
 
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ttgtctggcttataactcttaaggctgaaccaggcgtttttagacgacttgatcagctgt
 
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tagaatggtttggactccctctttcatgtcagtaacatttcagccgttattgttacgata
 
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tgcttgaacaatattgatctaccacacacccatagtatattttataggtcatgctgttac
 
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ctacgagcatggtattccacttcccattcaatgagtattcaacatcactagcctcagaga
 
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tgatgacccacctctaataacgtcacgttgcggccatgtgaaacctgaacttgagtagac
 
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gatatcaagcgctttaaattgcatataacatttgagggtaaagctaagcggatgctttat
 
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ataatcaatactcaataataagatttgattgcattttagagttatgacacgacatagttc
 
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actaacgagttactattcccagatctagactgaagtactgatcgagacgatccttacgtc
 
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gatgatcgttagttatcgacttaggtcgggtctctagcggtattggtacttaaccggaca
 
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ctatactaataacccatgatcaaagcataacagaatacagacgataatttcgccaacata
 
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tatgtacagaccccaagcatgagaagctcattgaaagctatcattgaagtcccgctcaca
 
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atgtgtcttttccagacggtttaactggttcccgggagtcctggagtttcgacttacata
 
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aatggaaacaatgtattttgctaatttatctatagcgtcatttggaccaatacagaatat
 
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tatgttgcctagtaatccactataacccgcaagtgctgatagaaaatttttagacgattt
 
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ataaatgccccaagtatccctcccgtgaatcctccgttatactaattagtattcgttcat
 
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acgtataccgcgcatatatgaacatttggcgataaggcgcgtgaattgttacgtgacaga
 
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gatagcagtttcttgtgatatggttaacagacgtacatgaagggaaactttatatctata
 
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gtgatgcttccgtagaaataccgccactggtctgccaatgatgaagtatgtagctttagg
 
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tttgtactatgaggctttcgtttgtttgcagagtataacagttgcgagtgaaaaaccgac
 
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gaatttatactaatacgctttcactattggctacaaaatagggaagagtttcaatcatga
 
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gagggagtatatggatgctttgtagctaaaggtagaacgtatgtatatgctgccgttcat
 
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tcttgaaagatacataagcgataagttacgacaattataagcaacatccctaccttcgta
 
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acgatttcactgttactgcgcttgaaatacactatggggctattggcggagagaagcaga
 
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tcgcgccgagcatatacgagacctataatgttgatgatagagaaggcgtctgaattgata
 
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catcgaagtacactttctttcgtagtatctctcgtcctctttctatctccggacacaaga
 
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attaagttatatatatagagtcttaccaatcatgttgaatcctgattctcagagttcttt
 
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ggcgggccttgtgatgactgagaaacaatgcaatattgctccaaatttcctaagcaaatt
 
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ctcggttatgttatgttatcagcaaagcgttacgttatgttatttaaatctggaatgacg
 
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gagcgaagttcttatgtcggtgtgggaataattcttttgaagacagcactccttaaataa
 
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tatcgctccgtgtttgtatttatcgaatgggtctgtaaccttgcacaagcaaatcggtgg
 
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tgtatatatcggataacaattaatacgatgttcatagtgacagtatactgatcgagtcct
 
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ctaaagtcaattacctcacttaacaatctcattgatgttgtgtcattcccggtatcgccc
 
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gtagtatgtgctctgattgaccgagtgtgaaccaaggaacatctactaatgcctttgtta
 
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ggtaagatctctctgaattccttcgtgccaacttaaaacattatcaaaatttcttctact
 
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tggattaactacttttacgagcatggcaaattcccctgtggaagacggttcattattatc
 
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ggaaaccttatagaaattgcgtgttgactgaaattagatttttattgtaagagttgcatc
 
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tttgcgattcctctggtctagcttccaatgaacagtcctcccttctattcgacatcgggt
 
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ccttcgtacatgtctttgcgatgtaataattaggttcggagtgtggccttaatgggtgca
 
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actaggaatacaacgcaaatttgctgacatgatagcaaatcggtatgccggcaccaaaac
 
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gtgctccttgcttagcttgtgaatgagactcagtagttaaataaatccatatctgcaatc
 
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gattccacaggtattgtccactatctttgaactactctaagagatacaagcttagctgag
 
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accgaggtgtatatgactacgctgatatctgtaaggtaccaatgcaggcaaagtatgcga
 
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gaagctaataccggctgtttccagctttataagattaaaatttggctgtcctggcggcct
 
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cagaattgttctatcgtaatcagttggttcattaattagctaagtacgaggtacaactta
 
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tctgtcccagaacagctccacaagtttttttacagccgaaacccctgtgtgaatcttaat
 
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atccaagcgcgttatctgattagagtttacaactcagtattttatcagtacgttttgttt
 
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ccaacattacccggtatgacaaaatgacgccacgtgtcgaataatggtctgaccaatgta
 
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ggaagtgaaaagataaatat