LOCUS       reference_p7            9104 bp    DNA              UNK 23-SEP-2015
DEFINITION  reference for patient p7, genomewide
ACCESSION   reference_p7
VERSION     reference_p7
KEYWORDS    .
SOURCE      
  ORGANISM  HIV-1
            .
FEATURES             Location/Qualifiers
     fragment        1..1791
                     /note="F1"
     fragment        1478..3336
                     /note="F2"
     fragment        3126..4653
                     /note="F3"
     fragment        4391..6052
                     /note="F4"
     fragment        5454..7494
                     /note="F5"
     fragment        7287..9104
                     /note="F6"
     RNA_structure   7248..7481
                     /note="RRE"
     RNA_structure   1..87
                     /note="LTR5'"
     RNA_structure   8599..9104
                     /note="LTR3'"
     gene            5541..5786
                     /note="vpu"
     gene            join(5301..5515,7858..7948)
                     /note="tat"
     gene            1547..4564
                     /note="pol"
     gene            4509..5087
                     /note="vif"
     gene            5704..8274
                     /note="env"
     gene            5027..5320
                     /note="vpr"
     gene            243..1760
                     /note="gag"
     gene            8277..8930
                     /note="nef"
     gene            join(5440..5515,7858..8132)
                     /note="rev"
     other           5704..5790
                     /note="env peptide"
     other           6181..6309
                     /note="V2"
     other           150..232
                     /note="psi"
     other           6865..6954
                     /note="V4"
     other           7075..7113
                     /note="V5"
     other           6097..6180
                     /note="V1"
     other           6481..6837
                     /note="V3"
     protein         243..638
                     /note="p17"
     protein         639..1331
                     /note="p24"
     protein         1332..1382
                     /note="p2"
     protein         1383..1547
                     /note="p7"
     protein         1548..1595
                     /note="p1"
     protein         1596..1760
                     /note="p6"
     protein         1721..2017
                     /note="PR"
     protein         2018..3337
                     /note="RT"
     protein         3338..3697
                     /note="p15"
     protein         3698..4564
                     /note="IN"
     protein         5797..7236
                     /note="gp120"
     protein         7237..8274
                     /note="gp41"
     other           6085..6321
                     /note="V1V2ext"
     other           6853..6966
                     /note="V4ext"
     other           7057..7128
                     /note="V5ext"
ORIGIN
        1 ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccct
       61 tttagtcagt gtggaaaatc tctagcagtg gcgcccgaac agggacttga aagcgaaagt
      121 agaaccagag gagctctctc gacgcaggac tcggcttgct gaagcgcgca cggcaagagg
      181 cgaggggcgg cgactggtga gtacgccaaa atttttgact agcggaggct agaaggagag
      241 agatgggtgc gagagcgtca gtattaagcg ggggagaatt agatagatgg gaaaaaattc
      301 ggttaaggcc agggggaaag aaaaaatata aattaaaaca tatagtatgg gcaagcaggg
      361 agctagaacg attcgcagtt aatcctggcc tgttagaaac atcagcaggc tgtagacaaa
      421 tattaggaca gctacagcca tcccttcaga caggatcaga agaacttaaa tcattatata
      481 atacaatagc agtcctctat tgtgtacatc aaaggataga ggtaaaagac accaaggaag
      541 ctctagacaa gatagaggaa gagcaaaaca aaagtaagac aaaggcacag caagcagcag
      601 ctgacacaaa aaatagcagt caggtcagcc aaaattaccc tatagtgcag aacctccagg
      661 ggcaaatggt acatcagccc atatcaccta gaactttaaa tgcatgggta aaagtagtag
      721 aagagaaggc ttttagccca gaagtaatac ccatgttttc agcattatca gaaggagcca
      781 ccccacaaga tttaaacacc atgctaaaca cagtgggggg ccatcaagca gccatgcaaa
      841 tgttaaaaga aaccatcaat gaggaagctg cagaatggga tagattgcat ccagtgcagg
      901 cagggcctat tgcaccaggc cagatgagag aaccaagggg aagcgacata gcagggacta
      961 ctagtaccct tcaggaacaa ataggatgga tgacaagcaa tccacctatc ccagtaggag
     1021 aaatctataa aagatggata atcatgggat taaataaaat agtaagaatg tatagcccta
     1081 ctagcattct ggacataaga caaggaccaa aggaaccttt tagagactat gtagaccggt
     1141 tctataaaac tctaagagcc gagcaagctt cacaggatgt aaaaaattgg atgacagaaa
     1201 ccttgttagt ccaaaatgcg aacccagatt gtaagactat tttaaaagca ttgggaccag
     1261 cagctacact agaagaaatg atgacagcat gccagggagt ggggggaccc agccataaag
     1321 caagagtttt ggctgaggca atgagccaag taacaaattc aacaaattca gctaccatga
     1381 tgatgcagag gggcaatttt aggaaaccaa gacagattgt taagtgtttc aattgtggca
     1441 aagaagggca tatagccaaa aactgcaggg cccctaggaa aaggggctgt tggaaatgtg
     1501 gaaaggaagg acaccaaatg aaagattgta ctgagagaca ggctaatttt ttagggaaga
     1561 tctggccttc ccacaaggga aggccaggga attttcctca ggggagacta gagccaacag
     1621 ccccaccaga agagagcttc aggtttgggg aagagacagc agcaacagct ccccctcaga
     1681 agcaggagcc actagacaag gaactgtatc ctttagcttc cctcagatca ctctttggca
     1741 acgacccctc gtcacaataa agataggggg gcaactaaag gaagctctat tagatacagg
     1801 agcagatgat acagtattag aagaaatgaa tttgccagga agatggaaac caaaaatgat
     1861 agggggaatt ggaggtttta tcaaagtaag acagtatgat cagataccca tagaaatctg
     1921 tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca taattggaag
     1981 aaatctgttg actcagcttg gttgcacttt aaattttccc attagtccta ttgaaactgt
     2041 accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc cattgacaga
     2101 ggaaaagata aaagcattag tagaaatttg tacagaaatg gaaaaggaag ggaaaatttc
     2161 aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga aaaaagacag
     2221 tactaaatgg agaaaattag tagatttcag agaacttaat aagagaactc aagacttctg
     2281 ggaagttcaa ttaggaatac cacatcccgc agggttaaaa aagaaaaaat cagtaacagt
     2341 actggatgtg ggtgatgcat atttttcagt tcccttatat gaagacttca ggaaatatac
     2401 tgcatttacc atacctagta caaacaatga gacaccaggg attagatatc agtacaatgt
     2461 gcttccacaa ggatggaaag gatcaccagc aatattccaa agtagcatga caaaaatctt
     2521 agagcctttt agaaaacaaa atccagacat aattatctat caatatatgg atgatttgta
     2581 tgtaggatct gacttagaga ttgggcagca tagaacaaaa atagaggaac tgagagaaca
     2641 tttgttgagg tggggattta ccacaccaga caaaaaacat cagaaagaac ctccattcct
     2701 ttggatgggt tatgaactcc atcctgataa atggacagta cagcctataa tgctgccaga
     2761 aaaagacagc tggactgtca atgacataca gaagttagtg ggaaaattaa attgggcaag
     2821 tcagatttat gcagggatta aagtaaagca attatgtaag ctccttaggg gagccaaagc
     2881 actaacagaa gtaataccgt taacagaaga agcagagcta gaactggcag aaaacaggga
     2941 gattctaaaa gaaccagtac atggggcgta ttatgaccca tcaaaagact taatagcaga
     3001 aatacagaag caggggctag gccaatggac atatcaaatt tatcaagagc catttaaaaa
     3061 tttgaaaaca ggaaaatatg caagaacaag gggtgcccac actaatgatg taagacaatt
     3121 aacagaggca gtgcaaaaaa tagtcacaga aagcatagtg atatggggaa agactcctaa
     3181 atttaaacta ccaatacaaa aagaaacatg ggaaacatgg tggacagaat attggcaagc
     3241 cacctggatt cctgagtggg agtttgtcaa tacccctccc ttagtgaaat tatggtacca
     3301 gttagagaaa gaacccatag taggagcaga aactttctat gtagatgggg cagctaatag
     3361 ggagactaaa ttaggaaaag caggatatgt tactgacaga ggaagacaga aagttgtctc
     3421 cctaactgac acaacaaatc agaagactga gttacaagca attcatctag ctttgcagga
     3481 ttcgggatta gaagtaaaca tagtaacaga ctcacaatat gcattaggaa tcattcaagc
     3541 acaaccagat aaaagtgaat cagagttagt tagtcaaata atagagcagt taataaaaaa
     3601 ggaaaaggta tacctagcat gggtaccagc acacaaagga attggaggaa atgaacaggt
     3661 agataaacta gttagtagtg gaatcaggaa agtactattt ttagatggaa tagataaggc
     3721 tcaagaagaa catgagaaat atcacaataa ttggagagca atggctagtg attttaacct
     3781 cccaccagta gtagcaaaag agatagtagc cagctgtgat aaatgtcagc taaaaggaga
     3841 agccatgcat ggacaagtag actgtagtcc aggaatatgg caactagatt gtacacattt
     3901 agaaggaaaa gttatcctgg tagcagttca tgtagccagt ggatatatag aagcagaagt
     3961 tattccagca gaaacaggac aggaaacagc atactttatc ttaaaactag caggaagatg
     4021 gccagtaaaa acaatacata cagacaatgg cagcaatttc accagtgctg cggttaaggc
     4081 cgcctgttgg tgggcaggaa tcaagcagga atttggcatt ccctacaatc cccaaagtca
     4141 aggagtagta gaatctatga ataaagaatt aaagaaaatt ataggacagg taagagatca
     4201 agctgaacat cttaagacag cagtacaaat ggcagtattc atccacaatt ttaaaagaaa
     4261 aggggggatt ggggagtaca gtgcagggga aagaataata gacataatag caacagacat
     4321 acaaactaaa gaattacaaa aacaaattac aaaaattcaa aattttcggg tctattacag
     4381 ggacagcaga gatccacttt ggaaaggacc agcaaagctt ctctggaaag gtgaaggggc
     4441 agtagtaata caagataata gtgacataaa agtagtgcca agaagaaaag caaagatcat
     4501 tagggattat ggaaaacaga tggcaggtga tgattgtgtg gcaagtagac agaatgagga
     4561 ttagaacatg gaaaagttta gtaaaacacc atatgtatat ttcaggaaaa gctaagggat
     4621 ggttttatag acatcactat gaaagcactc atccaagaat aagttcagaa gtacacatcc
     4681 cactagggga tgctagattg gtaataacaa catattgggg tctgcataca ggagaaagag
     4741 actggcattt gggtcaggga gtctccatag aatggaggaa aaagagatat agcacacaag
     4801 tagaccccaa cctagcagac caactaattc atctgtatta ctttgattgt ttttcagaat
     4861 ctgctataag aaatgccata ttaggaaata tagttagacc taggtgtgaa tatcaagcag
     4921 gacataacaa ggtaggatct ctacaatact tggcactagc agcattaata aaaccaaaaa
     4981 agataaagcc acctttgcct agtgttacga agctgacaga ggatagatgg aacaagcccc
     5041 agaagaccaa gggccacaga gggagccata caatgaatgg acactagagc ttttagagga
     5101 gcttaagaat gaagctgtta aacatttccc taggacatgg ctccatggct tagggcagca
     5161 tatttatgaa acatatgggg atacttgggc aggagtggaa gccataataa gaactctgca
     5221 acaactgctg tttattcatt tcagaattgg gtgtcgacat agcaggatag gcatctatac
     5281 tcgacagaga agagcaagaa atggagccag tagaccctag attagagccc tggaagcatc
     5341 caggaagtca gcctaagact gcttgtacca cttgctattg taaaaagtgt tgctttcatt
     5401 gccaagtttg tttcataaaa aaaggcttag gcatctacta tggcaggaag aagaggagac
     5461 agcgacgaag atctcctcaa gacagtcaga ctgatcaagt ttctctacca aagcagtaag
     5521 tagtatatgt aatgcaatct ataccaacaa taacaatagc agcaatagta gcattagtag
     5581 tagcagcaat aatagcaata gttgtgtgga ccatagtatt catagagtac aggaaaatat
     5641 taagacaaag aaaaatagac agattaattg agagaataag agaaagagca gaagacagtg
     5701 gcaatgaaag tgaaggagat caggaagaat tgtcagcact ggtggaaagg gggcaccttg
     5761 ctcttgggga tgttgatgat ctgtagtgct gcagaaaagg aaaaattgtg ggtcacagtc
     5821 tattatgggg tacctgtgtg gaaagaagca accaccactc tattttgtgc atcagatgct
     5881 aaagcatatg atacagaggt acataatgtt tgggccacac atgcctgtgt acccacagac
     5941 cctaacccac aagaagtagt attgggaaat gtgacagaaa attttaacat gtggaaaaat
     6001 aacatggtag aacagatgca ggaagatata atcagtttat gggatcaaag cctaaagcca
     6061 tgtgtagaat taactccact ctgtatcact ttaaactgct ctgatgctaa tatcactgct
     6121 actaatatca gtagtagtaa tagtactggg gaaatgatgg aaaaaggaga attaaaaaac
     6181 tgctctttca atgtcaccac aaacataaga gataaggtgc agaaacaata tgcaattttt
     6241 gatagacttg atatagtatt aatagatgat gataagaaag ataataatag ctacaggttg
     6301 atacattgta acacctcagt cattaaacag gcctgtccaa aggtgtcctt tgaaccaatt
     6361 cccatacatt attgtgcccc ggctggtttt gcgattataa agtgtaaaga taagaagttc
     6421 aatggaacag gactatgtaa agaggtcagc acagtacaat gtacacatgg aattaggcca
     6481 acagtgtcaa ctcaactgct gttaaatggc agtctagcag aagaagaggt agtaattaga
     6541 tctgaaaatt tcacgaacaa tgctaaaacc ataatagtac atctgaagga atctgtagaa
     6601 attaattgta taagacccaa caataataca agaaaaagta tacctatagg accagggaaa
     6661 gcattttata caacagaaat aataggaaat ataagacaag cacattgcaa cattagtata
     6721 gcaaaatgga ataaaacttt aggacagata gttgaaaaat taagagaaca atttaagaat
     6781 aaaacaatag tctttaatca atcttcagga ggggacccag aaattacaat gcacagtttt
     6841 aactgtggag gggaattttt ctactgtaat acagcgaaac tgtttaatag tacttggaat
     6901 gtaaatgtta ctaaagaatc aaatgacact gaaggaacta tcacaattcc atgtaggata
     6961 aaacaaatta taaacatgtg gcagaaagta ggaaaagcaa tatatgcccc tcccattaga
     7021 ggacaaatta gatgttcatc aaaaattaca gggctgctct tagtaagaga tggtggtagg
     7081 gaaaacaaga gcaagcccga gatcttcaga cctggaggag gagatatgaa ggacaattgg
     7141 cgaagtgaat tatataaata taaagtagta aaaattgaac caataggagt agcacccacc
     7201 gaggcaaaga gaagagtggt gcagagagaa aaaagagcag tgggaatagg agctatgctc
     7261 cttgggttct tgggagcagc aggaagcact atgggcgcag cgtcagtgac gctgacggta
     7321 caagccagac aattattgtc tggtatagtg caacagcaga gcaatttgct gagggctatt
     7381 gaggcgcaac aacatctgtt gcaactcaca gtctggggca tcaagcagct ccaggcaaga
     7441 gtcctggctg tggaaagatt cctaagggat caacagctcc tggggatttg gggttgctct
     7501 ggaaaactca tttgcaccac tgctgtgcct tggaatgtta gttggagtaa taagtctctg
     7561 aatcagattt gggataacat gacctggatg gagtgggaaa gagaaattga taactataca
     7621 ggcttcatat acaacttact tgaaaaatcg caaaaccaac aagaaaagaa tgaacaagaa
     7681 ttattggcat tagataagtg ggcaagtttg tggacttggt tggacataac aaactggctg
     7741 tggtatataa aaatattcat aatgatagta ggaggcttgg tagggttaag aatagttttt
     7801 gctgtgcttt ctatagtgaa tagagttagg cagggatact caccattgtc attgcagacc
     7861 cacctcccag ttccgaggga acccgacagg cccggaggaa tcgaagaaga aggtggagag
     7921 agagacagag acagatcagg acaattagcg ggtggattct tgacacttat ctggatcgac
     7981 ctgcggagcc tgtgcctctt cagctaccac cgcttgagag acttactctt gattgtaacg
     8041 aggattgtgg aacttctggg acgcaggggg tgggaagccc tcaaatattg gtggaatctc
     8101 ctgcagtatt ggagtcagga actaaagaat agtgcagtta gcttgctcaa tgccacagcc
     8161 atagcagtag ctgagggaac agataggatt atagaagtat tacaaagaat ttatagagct
     8221 attatccaca tacctacaag aataagacag ggtttggaaa gggccttgct gtaaagatgg
     8281 gtggcaagtg gtcaaaacgt agtgtccctg gatgggctgc tgtaagggaa agaatgagac
     8341 gaactagacc aacagatagg gagggagcag tatctcgaga gccagcagca gatggggtgg
     8401 gagcagtatc gcgagaccta gaaaaacatg gagcaatcac aagtagcaat acagcagcta
     8461 ctaatgctga ttgtgcctgg ctagaagcac aagaggatga ggaggtgggt tttccagtca
     8521 gacctcaggt acctttaaga ccaatgactt acaagggagc tttagatctt agccactttt
     8581 taaaagaaaa ggggggactg gaagggctag tttactccca gaaaagacaa gatatccttg
     8641 atctgtgggt ctaccacaca caaggctact tccctgattg gcagaactac acaccagggc
     8701 caggtaccag atacccactg tgttttggat ggtgcttcaa gctagtacca gttgagccag
     8761 agaagataga agaagccaat gaaggagaga acaacagctt gttacaccct atgagcctgc
     8821 atgggatgga tgacccggag ggagaagtgt tagtgtggaa gtttgacagt cacctagcat
     8881 ttcgtcacat ggcccgagag ctgcatccgg agtactacaa ggactgctga catcgagctt
     8941 tctacaaggg actttccgct ggggactttc cagggaggcg tggcatgggc gggactgggg
     9001 agtggcgagc cctcagatgc tgcatataag cagctgcttt ttgcctgtac tgggtctctc
     9061 tagttagacc agatctgagc ctgggagctc tctggctagc tagg
//
