LOCUS       reference_p8            9120 bp    DNA              UNK 23-SEP-2015
DEFINITION  reference for patient p8, genomewide
ACCESSION   reference_p8
VERSION     reference_p8
KEYWORDS    .
SOURCE      
  ORGANISM  HIV-1
            .
FEATURES             Location/Qualifiers
     fragment        1..1775
                     /note="F1"
     fragment        1468..3320
                     /note="F2"
     fragment        3110..4637
                     /note="F3"
     fragment        4375..6027
                     /note="F4"
     fragment        5432..7529
                     /note="F5"
     fragment        7322..9120
                     /note="F6"
     RNA_structure   7283..7516
                     /note="RRE"
     RNA_structure   1..87
                     /note="LTR5'"
     RNA_structure   8606..9120
                     /note="LTR3'"
     gene            5522..5767
                     /note="vpu"
     gene            join(5279..5493,7893..7983)
                     /note="tat"
     gene            1537..4548
                     /note="pol"
     gene            4493..5071
                     /note="vif"
     gene            5685..8309
                     /note="env"
     gene            5011..5298
                     /note="vpr"
     gene            242..1744
                     /note="gag"
     gene            8311..8937
                     /note="nef"
     gene            join(5418..5493,7893..8167)
                     /note="rev"
     other           5685..5771
                     /note="env peptide"
     other           6192..6323
                     /note="V2"
     other           150..231
                     /note="psi"
     other           6906..6995
                     /note="V4"
     other           7116..7148
                     /note="V5"
     other           6072..6191
                     /note="V1"
     other           6495..6878
                     /note="V3"
     protein         242..637
                     /note="p17"
     protein         638..1330
                     /note="p24"
     protein         1331..1372
                     /note="p2"
     protein         1373..1537
                     /note="p7"
     protein         1538..1585
                     /note="p1"
     protein         1586..1744
                     /note="p6"
     protein         1705..2001
                     /note="PR"
     protein         2002..3321
                     /note="RT"
     protein         3322..3681
                     /note="p15"
     protein         3682..4548
                     /note="IN"
     protein         5772..7271
                     /note="gp120"
     protein         7272..8309
                     /note="gp41"
     other           6060..6335
                     /note="V1V2ext"
     other           6894..7007
                     /note="V4ext"
     other           7098..7163
                     /note="V5ext"
ORIGIN
        1 ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct
       61 tttagtcagt gtggaaaatc tctagcagtg gcgcccgaac agggacttga aagcgaaaga
      121 gaaaccagag gagctctctc gacgcaggac tcggcttgct gaagcgcgca cggcaagagg
      181 cgaggggcgg cgactggtga gtacgccaaa tttttgacta gcggaggcta gaaggagaga
      241 gatgggtgcg agagcgtctg tattaagcgg gggaaaatta gatagatggg aaaaaattcg
      301 gttaaggcca gggggaaaga aaaaatacaa gttaaaacat atagtatggg caagcaggga
      361 gctagaacga ttcgcagtta atcctggcct attagaaaca tcagaaggct gtagacaaat
      421 actgagacag ctacaaccat cccttcaaac aggatcagag gaacttaaat cattatataa
      481 tacaatagca accctctatt gtgtgcatca agggatagag gtaagagaca ccaaggaagc
      541 tttagagaag atagaggaag agcaaaacaa aagtaagaaa aaggcacagc aagcagcagc
      601 tgacacagga aacagcagcc aggtcagcca aaattaccct atagtgcaaa acctccaggg
      661 gcaaatggta catcaggccc tatcacctag aactttaaat gcatgggtaa aagtagtaga
      721 agaaaaggct ttcagcccag aagtaatacc catgttttca gcattatcag aaggagccac
      781 cccacaagat ttaaacacca tgctaaatac agtgggggga catcaagcag ccatgcaaat
      841 gttaaaagag accatcaatg aggaagctgc agaatgggat agattgcatc cagtgcatgc
      901 agggcctatt gcaccaggcc agatgagaga accaagggga agcgacatag caggaactac
      961 tagtaccctt caggaacaaa taggatggat gacacataat ccacctatcc cagtaggaga
     1021 aatctataaa agatggataa tcatgggact aaataaaata gtaaggatgt atagccctac
     1081 tagcattttg gacataagac aaggaccaaa ggaacccttt agagactatg tagatcggtt
     1141 ctataaaact ctaagagccg agcaagcttc acaggaggta aaaaattgga tgacagaaac
     1201 cttgttggtc caaaatgcaa acccagattg caagactatt ttaaaagcat tgggaccagc
     1261 agctacacta gaggagatga tgacagcatg tcagggagtg gggggacccg gccataaagc
     1321 aagagttttg gctgaagcaa tgagccaagt aacaaattca actaacataa tgatgcagaa
     1381 aggcaatttt aggaaccaaa gaaagactgt taagtgtttc aattgtggca aagaagggca
     1441 catagccaga aattgcaggg cccctagaaa aaagggctgt tggaaatgtg gaaaggaagg
     1501 acaccaaatg aaagattgta ctgagagaca ggctaatttt ttagggagga tctggccttc
     1561 ccacaaggga aggccaggga atttccttca gagcagacca gagccaacag ccccaccaga
     1621 agagagcttc aggtttgggg aagagacagc aactccctct cagaagcaag agacgataga
     1681 cagggaactg tatcctttag cttccctcaa atcactcttt ggcaacgacc cctcgtcaca
     1741 gtaaagatag gggggcaact aagggaagct ctattagata caggagcaga tgatacagta
     1801 ttagaagaaa tagatttgcc aggaagatgg aaaccaaaaa tgataggggg aattggaggt
     1861 tttatcaaag taagacagta tgatcaggta tccgtagaca tctgtggaca taaggctata
     1921 ggtacagtat tagtaggacc tacacctgtc aacataattg gaagaaatct gttgactcag
     1981 attggttgca ctttaaattt tcccattagt cctattgaaa ctgtaccagt aaaattaaag
     2041 ccaggaatgg atggcccaaa agttaaacaa tggccattga cagaagaaaa gataaaagca
     2101 ttagtagaaa tttgtacaga aatggaaaag gaaggaaaaa tttcaaaaat tgggcctgaa
     2161 aatccataca atactccagt atttgccata aagaaaaaag acagtactaa atggagaaaa
     2221 ttagtagatt tcagagaact taataagaga actcaagact tctgggaagt tcaattagga
     2281 ataccacatc ccgcagggtt aaaaaagaaa aaatcagtaa cagtactaga tgtgggtgat
     2341 gcatatttct cagttccctt agataaagac tttaggaagt atactgcatt taccatacct
     2401 agtacaaata atgagacacc agggattaga tatcagtaca atgtgcttcc acagggatgg
     2461 aaaggatcac cagcaatatt ccaaagtagc atgacaaaaa ttttagagcc ttttagaaaa
     2521 caaaatccag acatagttat ctatcaatac atggatgatt tgtatgtagg atctgattta
     2581 gaaatagggc agcatagaac caaaatagaa gaactgagac aacatctgtt gaagtgggga
     2641 tttaccacac cagacaaaaa acatcagaaa gaacctccat tcctttggat gggttatgaa
     2701 ctccatcctg ataaatggac agtacagcct atagtgctgc cagaaaaaga cagctggact
     2761 gttaatgaca tacagaagtt agtgggaaag ttgaattggg caagtcagat ttatgcaggg
     2821 attaaagtaa ggcaattatg taaactcctt aggggaacca aagcactaac agaagtaata
     2881 ccactaacaa cagaagcaga gctagaactg gcggaaaaca gggagattct aaaagagcca
     2941 gtacatggag catattatga tccatcaaaa gacttaatag cagaaataca gaaacaggaa
     3001 caaggccaat ggtcatatca gatttatcaa gagccattta aaaatctgaa aacaggaaaa
     3061 tatgcaagaa tgaggggtgc ccacactaat gatgtaaaac tattaacaga ggcagtgcaa
     3121 aaaatagcca cagaaagcat agtaatatgg ggaaagactc ctaaatttaa actacccata
     3181 caaaaagaaa catgggaagc atggtggaca gactattggc aagccacctg gattcctgag
     3241 tgggagtttg ttaatacccc tcccttagtg aaattatggt accagctaga gaaagaaccc
     3301 atagaaggag cagaaacttt ctatgtagat ggggcagcta acagggagac taaattagga
     3361 aaagcaggat atgttactaa caagggaaga caaaaagttg tccccctaac tgacacaaca
     3421 aatcagaaga ctgagttaga agcaattcat ttagctttgc aggattcggg actagaagta
     3481 aacatagtaa cagactcaca gtatgcattg ggaatcattc aagcacaacc agataaaagt
     3541 gaatcagaag tagtcagtaa aataatagag caattaataa aaaaggaaaa ggtctacctg
     3601 gcatgggtac cagcacacaa gggaattgga ggaaatgaac aagtagataa actagtcagc
     3661 actggaatca ggagggtact atttttagat ggaatagata aggcccaaga agaacatgag
     3721 aaatatcata ataattggag agcaatggct gatgagttta acctgccacc tgtggtagca
     3781 aaagaaatag tagccagctg tgataaatgc caggtaaaag gagaagctat gcatgggcaa
     3841 gtagactgta gtccaggaat atggcaatta gattgtacgc atttagaagg aaaaattatc
     3901 ctggtagcag tgcatgtagc cagtggatat atagaagcag aagttattcc agcagagaca
     3961 gggcaggaaa cagcatactt tctcttaaaa ttagcaggga gatggccagt aaaaacaata
     4021 catacagaca atggcagcaa tttcaccagt actacggtta aggccgcctg ttggtgggcg
     4081 gggatcaagc aggaatttgg tattccctac aatccccaaa gtcaaggagt agtagaatct
     4141 atgaataaag aattaaagaa aattatagga caggtaagag atcaggctga acatcttaag
     4201 acagcagtac aaatggcagt attcatccac aattttaaaa gaagaggggg gattggggga
     4261 tacagtgcgg gggaaagaat agtagacata atagcaacag acatacaaac taaagaatta
     4321 caaaaacaaa ttacaaaaat tcaaaatttt cgggtttatt acagggacag cagagatcca
     4381 ctttggaaag gaccagcaaa gcttctctgg aaaggtgaag gggcagtagt aatacaagat
     4441 aatagtgaca taaaagtagt gccaagaaga aaagcaaaga tcattaggga ttatggaaaa
     4501 cagatggcag gtgatggttg tgtggcaagt agacaggatg aggattaaaa catggaaaag
     4561 tttagtaaaa caccataagt atatttcaaa gaaagctaag gaatgggttt atagacatca
     4621 ctatgaaaac cctcatccaa gaataagttc agaagtacac atcccactag gggatgctag
     4681 attggtaata acaacatatt ggggtctaca tacaggagaa agagaatggc atttgggtca
     4741 gggagtctcc atagaatgga ggaaaaggag atatagcaca caagtagacc ctgacctagc
     4801 agaccaacta attcatctgt attactttga ttgtttttca gaatctgcta taagacatgc
     4861 catattagga catatagtta gtcctaggtg tgaatatcaa gcaggacata acaaggtagg
     4921 atctctacag tacttggcac taacagcatt aataacacca aaaaagataa cgccaccttt
     4981 gcctagtgtt acgaaactga cagaggatag atggaacaag ccccagaaga ccaagggcca
     5041 cagagggagc catacaatga atgggcacta gagcttttag aggagcttaa gaatgaagct
     5101 gttagacatt ttcctaggaa ttggctccat ggcttagggc aacatatcta tgaaacttat
     5161 ggggatactt gggctggagt ggaagccata ataagaattc tgcaacaact gctgtttatt
     5221 catttcagaa ttgggtgtcg acatagcaga ataggcattc aacagaggag aacaagaaat
     5281 ggagccggta gatcctagac tagagccctg gaagcatcca ggaagtcagc ctaggactgc
     5341 ttgtaccact tgctattgta aaaagtgttg ctttcattgc caagtttgct tcataacaaa
     5401 aggcttaggc atctcctatg gcaggaagaa gcggagacag cgacgaagag ctcctccaga
     5461 cagtcagatt gatcaagctt ctctatcaaa gcagtaagta atacatgtaa tgcaaccttt
     5521 acaaatatca gtaatagtag cattagtagt agcattagta gtagtaacaa taatagcaat
     5581 agttgtgtgg tccatagtac tcatagaata taggaaaata ttaagacaaa gaaaaataga
     5641 caggttactt gatagaataa gagaaagagc agaagacagt ggcaatgata gtgaaggaga
     5701 tcaggaagaa ttatctacgc ttatggagat ggggcaccat gctccttggg atgtggatga
     5761 tctgtagtac tgcagaaaat ttgtgggtca cagtctatta tggggtacct gtgtggaaag
     5821 aagcaaacac cactctattt tgtgcatcag atgctaaagc atatgagaca gaggcacata
     5881 atgtttgggc cacacatgcc tgtgtaccca cagaccccaa cccacaagaa gtagtattgg
     5941 aaaatgtgac agaaaacttt aacatatgga aaaataacat ggtagaacag atgcatgagg
     6001 acataatcaa tttatgggat caaagcctaa agccatgtgt taaattaacc ccactctgtg
     6061 tcactctaaa ttgcagtgat gatttgagga atactacaaa taccaatcct actggtgcta
     6121 ctaaaaccaa tactactagt actaatagta gtaacgaggg aatgctggag gagaaaggag
     6181 agataaaaaa ctgttctttc aatatcacca caaacatgag agataagata cagaaagaat
     6241 atgcactttt ttataaactt gatgtagtac aaataggtaa tgatggtaat aatgatagta
     6301 ccagctatag gttgataagt tgtaatacct cagtcattac acaagcctgt ccaaagatat
     6361 cctttgagcc aattcctata cattattgtg ccccggctgg ttatgcgatt ttaaagtgta
     6421 atgataagaa gttcaatgga tcaggagaat gtagcaatgt cagcacagta caatgtacac
     6481 atggaattag gccagtagta tcaactcaac tgctgttaaa tggcagccta gcagaagaag
     6541 agatagtaat tagatctgaa aatttctcga acaatgctta caccataata gtacagctga
     6601 atgaatctgt agtaattaat tgtacaagac ccaacaacaa tacaagaaaa agtataacta
     6661 taggaccagg aagagcattt tatgcaacag gagaaataat aggaaatata agacaagcac
     6721 attgtaacat tagtcaagaa gattggaata aagctttaaa acaggtagct acaaaattga
     6781 cagaacatat ttatgaaaca gatttgagag aaaattttac tggaacaata gtctttaatc
     6841 aatcttcagg aggggaccca gaaattgtag cacacagttt taactgtgga ggggaatttt
     6901 tctactgtga tacaacacaa ctgtttaata gtacttggaa gaatggtact gaagaatcaa
     6961 atcaaactga agggtcaact atcacactca gatgcagaat aaaacaagtt ataaacaggt
     7021 ggcagggagt aggaaaagca atgtatgccc ctcccatcag aggacaaatt agctgttcat
     7081 cacatattac agggctgcta ttaacaagag atggtgataa gaacaggtcc gaggagacct
     7141 tcagacctat aggaggaaat atgaaggaca attggagaaa tgaattatat aaatataaag
     7201 tagtaaaaat tgaaccatta ggactggcac ccaccaaggc aaagagaagg gtggtgcaga
     7261 gagaaaaaag agcagtggga ataggagcta tgttccttgg gctcttgagc gcagcaggaa
     7321 gcactatggg cgcagcgtca ctgacgctga cggtacaggc cagacaatta ttgtctggta
     7381 tagtgcaaca gcagaacaat ctgctgaggg ctattgaggc gcaacaccat ctgttgcaac
     7441 tcacagtctg gggcatcaag cagctccagg caagagtcct ggctgtggaa agatacctaa
     7501 gggatcaaca gctcctgggg atttggggtt gctctggaaa actcatttgc gccactgctg
     7561 tgccttggaa tgctagttgg agtaataaat ctcagaagga gatttgggaa aacatgacct
     7621 ggatggagtg ggaaagagaa attgacaatt acacagactt aatatactcc ttacttgaaa
     7681 aatcgcagaa ccaacaagaa aaaaatgaac aagagttatt ggaattagat aaatgggcaa
     7741 gtttgtggaa ttggtttgac ataacaaaat ggctgtggta tataaaaata ttcataatga
     7801 tagtaggagg cttgataggt ttaagaatag tttttgtagt actttctata gtgagtagag
     7861 ttaggcaggg atactcacca ttatcgtttc agacccacct cccagccccg aggggaccag
     7921 acaggcccga aggaatcgaa gaagaaggtg gagagcgaga cagagacaga tccaggccct
     7981 tagtggatgg attcttagca attgtctggg tcgacgtgcg gagcctactc ctcttcagct
     8041 accaccgctt gagagactta ctctcgattg taacgaggac tgtggaactt ctgggacgca
     8101 gggggtggga ggccctcaaa tattggtgga atctcctaca gtattggagt caggaactaa
     8161 agaatagtgc tgttaacttg cttaatgtca tagctatagc agtagctgag ggaacagata
     8221 gggttataga agtagtgcaa agagcttgta gagctgtcct caacgtaccg agacgaataa
     8281 gacagggctt ggaaaggctt ttgctataag atgggtggca agtggtcaaa acgtatgtgt
     8341 ggatggccta ctgttaggga aagaatgaga cgagctgagc caacagagcc agcagcagtt
     8401 ggggtgggag cagcatctcg agacctggaa aaatatggag caatcacaag tagtaataca
     8461 gcagctacta atgctgattg tgcctggcta gaagcacaag aggaggagga ggtgggtttt
     8521 ccagtcagac ctcaggtacc tttaagacca atgacttaca aggcagctgt agatcttagc
     8581 cactttttaa aagaagaggg gggactggaa gggctagttt actcccagag gagatctgat
     8641 atccttgatc tgtgggttta ccacacacaa ggctacttcc ctgattggca gaattacaca
     8701 ccagggccag ggatcagata tccactgacc tttggatggt gctttaagct agtaccagtg
     8761 gaaccagaga agatagaaga ggccaatgaa ggagagaaca acagcttgtt acaccctatg
     8821 agcctgcatg gaatggatga cccagagaga gaagtgctag tgtggaagtt tgacagccgc
     8881 ctagcgttcc gtcacatggc ccgagagctg catccggagt actacaagaa ctgaagaact
     8941 gctgacatcg agctttctac aagggacttt ccgctgggga ctttccaagg gaggcgtggc
     9001 ctgggcggga ctggggagtg gcgagccctc agatgctgca tataagcagc tgctttctgc
     9061 ctgtactggg tctctctggt tagaccagat ctgagcctgg gagctctctg gctaactagg
//
