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view test-data/files/final.noOrphans.aln @ 0:9a3a2e04f47a draft default tip
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| author | dave |
|---|---|
| date | Mon, 10 Jun 2019 16:04:10 -0400 |
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>K03455|HIVHXB2CG_418_930_3_0_0_1_0_0_14/1 ------------------------------------------------------------ ----------------------------GA------TCCTGC-------------ATATA AGCAGCAGCTTTTTGCCTTT------------ACTGGTTCTCTCTGGTTAGAC------- ------------------------------------------------------CAGATC TGAGCCTGGG---------------------------- >K03455|HIVHXB2CG_7976_8475_3_0_0_1_0_0_61/1 ------------------------------------------------------------ ---------------------------CAG------ATACCT-------------AAATG ATCAACAGCTCCTGGGGATT-------------TGGGGTTGCTCTGGAAAACT------- ------------------------------------------------------CATTTG CACCCCTGCT---------------------------- >K03455|HIVHXB2CG_7932_8405_1_0_0_1_0_0_17/1 GTCTGG------------------------------------GGCATCAAGCAGCTCCAG G-------CAAGAATGCTGGCTGTGGAAAG------ATACCT-------------AAAGG ATCAACAGCTCC------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_6869_7379_1_0_0_3_0_1_11/1 ------------------------------------------------------------ -------------------ACAGTAGAAAA------ATTCCCCTCCACCATTAAAACTGT GGTTACAATATC---------------------TGGGTCCCCTCC--------------- -----------------------------------------------------------T GAGGATTGGT---------------------------- >K03455|HIVHXB2CG_6865_7379_1_0_0_0_0_1_4d/1 ------------------------------------------------------------ -------------------ACAGTAGAAAA------ATTCCCCTCCACAATTAAAACTGT GGTTACAATTTC---------------------TGGGTCCCCTCC--------------- -----------------------------------------------------------T GAGGATTGCT---------------------------- >K03455|HIVHXB2CG_8069_8641_1_0_0_0_0_0_38/1 TCCTG------------------------------------------------ACTCCAA ------------------TACTGTAGGAGA------TTCCAC------------------ -----CAATATT---------------------TGAGGGCTTCCCACCCCCTG------- ------------------------------------------------------CGTCCC AGAAGTT------------------------------- >K03455|HIVHXB2CG_6040_6545_1_0_0_0_0_0_2/1 ----------------------------------------------------ATCCTCAT -------------GCATCTGTTCTACCATG------TCATTTTT-----------CCACA TGTTAAAATTTTCTGT-----------------CACATTTAC---CAATACT-------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_6480_6947_0_0_0_2_0_0_32/1 ----------------------------------------------------TT------ ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA-------- ------------------------------------------------------------ ---------------TGAGGATATAA------------ >K03455|HIVHXB2CG_6482_6962_0_0_0_1_0_0_35/1 ------------------------------------------------------------ ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA-------- ------------------------------------------------------------ ---------------TGAGGATATAAT-----C----- >K03455|HIVHXB2CG_5990_6505_1_0_0_0_0_0_3f/1 ------------------------------------------------------------ ------------------------------------------------------------ --TTAAAATTTTCTGT-----------------CACATTTAC---CAATACTA------- ------------------------------------------------------CTTCTT GTGGGTTGGGGTCTGTGGGTACACAGGCATGTG----- >K03455|HIVHXB2CG_2700_3243_0_0_0_3_1_0_51/1 ------------------------------------------------------------ --------------CACCCATCCAAAGGAA------TTGAGGTT-----------CTTT- --CTGATGTTTTTTGT-----------------CTGGTGTGG---TAAGTCCC------- ------------------------------------------------------CACCTC GACAG--------------------------------- >K03455|HIVHXB2CG_313_880_0_0_0_2_0_0_54/1 CTTTA------------------------------------------TATTTTTTCTTAC -------------CCCCTGGCCTTAACCGA------ATTTTTTC-----------CCATC GATCTAATTCTCC--------------------CCCGCTTAA------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_121_652_1_0_0_0_0_0_5f/1 TCC--------------------------------------------CTGTTCG------ ---------------GGCGCCACTGCTAGA------GATTTTCC-----------ACACT GACTAAAAGGGTCTGA-----------------GGGA---TCTCTAGTTACC-------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_6045_6577_2_0_0_1_0_0_47/1 ------------------------------------------AGTAAGTAGTACCTGTAA C--GCAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT AGCACTAATAAT------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_6065_6509_1_0_0_1_0_0_3a/1 ------------------------------------------------------------ ----CAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT AGCAATAATAATAGCAATAG------------TTGAGTGGTC------------------ ------------------------------------------------------------ ---------------------------CA--------- >K03455|HIVHXB2CG_4276_4897_1_0_0_1_0_0_3d/1 ACAGTAA------------TTGGAG--------------AGCAATGGCTAGTGATTTTAA CCTGCCACCTGTAGTAGCAA-AAGAAATAG------TAGCCCG----------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_3823_4361_1_0_0_0_0_0_30/1 ------------------------------------------------------------ ---------TATGGTACCAGTTAGAGAAAG------AACCCCTA-----------GTAGG AGCAGAAACCTTCTATGTAG------------ATGGGGCAGC------------------ ------------------------------------------------------------ ---------------------------TAACAG----- >K03455|HIVHXB2CG_4457_4958_4_0_0_0_0_0_44/1 ---------------------------------------------AGTTCATGTATCCAG T----------GGATATATAGAAGCAGAAG------TTATTCCAGCAGAAACAGGGGCTG AAACAGCATAT------------------------------------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_4420_4903_1_0_0_1_0_0_31/1 ATTGTACA--------CATTTAGAATGAAAAGTTATCCTGGTAGCAGTTCATGTAGCCAG T----------GGATATATAGAAGCAGA-------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_4476_4938_5_0_0_3_0_0_2b/1 ------------------------------------------------------------ --------------TATAAAGACGCAGAAG------TTATTCCAGCATACACAGGGCAGG AAACAGCATATTTTCTTTT--------------CAAATTAG------------------- ------------------------------------------------------------ -----------CAG------------------------ >K03455|HIVHXB2CG_4053_4544_2_0_0_2_0_0_52/1 ------------------------------------------------------------ --------------TGCTAA-----------------------------------TTTTA AAAGACAATATTCTGTTTC--------------CTGCCCTGTTTCTGCTGGAA------- ------------------------------------------------------TAACTT CTGCTTCTATATAT------------------------ >K03455|HIVHXB2CG_5585_6024_1_0_0_0_0_0_60/1 ------------------------------------------------------------ --------------GCCA---CAGAGGGAG------CCACACAA-----------TGAAT GGACACTATAGCTTTTAGAG--GAGCTTAAGAATGAAGCTGTTA---------------- ------------------------------------------------------------ ------------------GA------------------ >K03455|HIVHXB2CG_3199_3700_2_0_0_1_0_0_4a/1 ------------------------------------------------------------ --------------CC--------------------CCATAT------------------ ---TACTATGCTTTCTGTGGTTAATTTTTGCACTGCCTCTGTTAATTGTTTTA------- ------------------------------------------------------CATCAT TAG--------------TGT------------------ >K03455|HIVHXB2CG_673_1207_2_0_0_2_0_0_16/1 ------------------------------------------------------------ ----------------------CAGAGGAG------GTCTCT------------------ ----------------------CGACGCAGGACTCGGCTTGCTGAAGGGCGCA------- ------------------------------------------------------CGGCAA GAGGCGAGGGGCGG-CGACT------------------ >K03455|HIVHXB2CG_667_1161_0_0_0_1_0_0_37/1 ------------------------------------------------------------ ----------------GGAAACCAGAGGAG------CTCTCT------------------ ----------------------CGACGCAGGACTCGGCTTGCTGAAGCGCGCA------- ------------------------------------------------------CGGCAA GAGGCGAGGGGCG------------------------- >K03455|HIVHXB2CG_1938_2460_2_0_0_0_0_0_55/1 ------------------------------------------------------------ --------------TAGGAACCAAAGAAAG------ATAGTT------------------ ----------------------AAGTGTTTCAATTGTGGCACAGAAGGGCACA------- ------------------------------------------------------CAGCCA GAAATTGCAGG--------------------------- >K03455|HIVHXB2CG_2928_3444_5_0_0_1_0_0_5d/1 CTTCTTC-----------------------------TGTTAGTGGTATTACTTCTGTTAG TGCTTTGGTACCTCTAAGGAGTTTACATAA------TTGCCTTAC--------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_2832_3397_3_0_0_2_0_0_9/1 ------------------------------------------------------------ ----------------AGGATTTTACATAA------TTGCCTTACTTAAATCCCTGGGTA AATCTGACTTGCCCAATT---------------CAATTTCCCCA---------------- -----------------------------------------------------------C TA------------------------------------ >K03455|HIVHXB2CG_7233_7687_1_0_0_1_0_0_5a/1 ------------------------------------------------------------ -------------ACTTTATATTTATATAA------TTCACTTCTCCAATTGTCC----- -----------CTCATCT---------------CTCCTCCTCCAGGTCTGAAG------- -------------------------------------------------------ATCTC GG------------------------------------ >K03455|HIVHXB2CG_7273_7731_1_0_0_5_0_0_6/1 TCTTTGC-----------------------------CTTGGTTGGAGCAACTCCTAATGG TTGAATTTTTACTACTTTATATTTATATAA------TTCCCTTCT--------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_8342_8779_1_0_0_2_0_0_40/1 ------------------------------------------------------------ -----------------------TCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG GCGCATAGCTCTACAAGC---------------TCCTTGTACTACTTCAATAA------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_8349_8802_1_0_0_0_0_0_29/1 -----------------------------------------------------------A CCCATCTTATAGCA-AAATCCTTTCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG GCGAATAGCTCTACA--------------------------------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1235_1682_3_0_0_0_0_0_56/1 ------------------------------------------------------------ ----------TCTACATAGTCTCTAAAGGGTTCCTTTGGTCCTTGTCTTATGTCCAGAAT GCTGGTAGGGCT------------------------AT---------ACATTC------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5438_5909_1_0_0_4_0_0_7/1 ------------------------------------------------------------ ----------AATA-GCAATTTGTACAAG-------CAGTTTTAGGCTGACTTCGTGGAT GCTTCCAGGGCT------------------------CTCGTCTA-GGATCAAC------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_6619_7094_0_0_0_2_0_0_41/1 ------------------------------------------------------------ ----------TGTG-TTCAGCTGTACTAT-------TATGGTTATAGCATTTTCCGTGAA ATTGACAGATCTAATTAC---------------TACCTCTTCT----------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5574_6092_2_0_0_1_0_0_5/1 ------------------------------------------------------------ ----------------------------------------CTACTATTGCTACTAATGGT ATAGGTTGCGTTACATGT---------------ACTACTTACTGCTTTGATAGA------ -----------------------------------------------------GAAGCTT GAT-----------------------------G----- >K03455|HIVHXB2CG_7126_7621_1_1_1_3_1_0_26/1 --------------------------------------TCGGAGTCATTGTTGCTATTAC CACCATCTTTTGTTCATAGCAGCCCTGTAA------TATTTGATT--------------- ------------------------------------------------------------ ------------------------------------------------------AACATC TAA----------------------------------- >K03455|HIVHXB2CG_3596_4110_1_0_0_2_0_0_59/1 ---------------------------------------------------TTTGATTG- -ACTAACTCTGATTCACTTTGATCTTGTAG------TGCTTGAAT--------------- ------------------------------------------------------------ ------------------------------------------------------GATTCC TAATGCATAT-----TGTGA----------GTC----- >K03455|HIVHXB2CG_1707_2205_1_0_0_3_0_0_48/1 -----------------------CGAGCA-----AGCTTCACAGGAGTTAAA-------- -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG AACCCAGAT--------------------------------------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1717_2240_0_0_0_2_0_0_4b/1 --------------------------------------TCACAGGAGGTAAA-------- -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG AACCCAGATTGTAAGA-----------------CTA------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1739_2301_2_0_0_2_0_0_33/1 ------------------------------------------------------------ -------------------------------TGACAGAAACCTAGTTGGTCCAAAATGCG AACCCAGATTGTAAGA-----------------CAATTTTAAAAGCATTGGGACCAGC-- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1786_2269_1_0_0_1_0_0_39/1 ------------------------------------------------------------ ------------------------------------------------------------ -----------------------------------ATTTTAAAAGCATTGGGACCAGCGG CTACACTAGAAGAAATGATGACAGCATGTCAGGGAG-------------TAGGATGAC-- -------------------------------------- >K03455|HIVHXB2CG_6501_7035_0_0_0_0_0_0_b/1 ------------------------------------------------------------ ------------------------------------CTACCTCTTCTTCTGCTAGACTGC C-----------------------------------ATTTAACAGCAGTTGAGTTGATA- ---------------------------------------------CTACTGGCCTAATTC CATGT--------------------------GT----- >K03455|HIVHXB2CG_6976_7493_0_0_0_0_0_0_12/1 ------------------------------------------------------------ ----------------------TTAGGCCAGTAGTATCAACTCAACTGCTGTTAAATGGC A-----------------------------------GTCTAGCAGAAGAAGAGGTAGTA- ---------------------------------------------AT-------TAGATC -------------------------------------- >K03455|HIVHXB2CG_5516_5958_3_0_0_2_0_0_20/1 ---TAACG---------------------------------------------------- -----------------CCACCTTTGCCTAGTGTTACGAAACTGCCAGAGGATAGATGGA AC---AA----------------------------GCCCCAGAAGACGAAGGG------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_8434_8946_0_0_0_1_0_0_21/1 GTGGAGA----------------------------------------------------- ------------------------GAGAGACAGAGACAGATCCATTCGATTAGTGAACGG ATCC----------------------------------TTGGCACTTATCTGGGA----- ------------------------------------------------------CGATCT -------------------------------------- >K03455|HIVHXB2CG_7957_8508_2_0_0_2_1_0_2c/1 TCCGAAGA---------------------------------------------------- -----------------TCGTCCCAGATAAGTGCCAAGGATCCGTTCACTACTCGAATGG ATCTGA------------------------------CTCTGTCTCT-------------- ---------------------------------------------------------CTC -------------------------------------- >K03455|HIVHXB2CG_5251_5720_0_0_0_1_0_0_4/1 CCAAGTA----------------------------------------------------- ---------------------TCCCCATAAGTTTCATAGATATGATGCCCTAAGCCATGG AGCCAAA----------------------------TCCTAGGAAAATGTCTA-------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5199_5715_1_0_0_2_0_0_1a/1 -----TA----------------------------------------------------- ---------------------TCCCCATAAGTTTCATCGATATGTTGCCCTAAGCGATGG AGCCAAA----------------------------TCCTAGGAAAATGTCTAAC------ ---------------------------------------------------------AGC -------------------------------------- >K03455|HIVHXB2CG_1672_2143_3_0_0_2_0_0_1d/1 ----TGC----------------------------------------------------- ---------------------TCTGAAGAAAATTCCCTG----GCCTTCCCTTGTAGTAA GGCCATA----------------------------TCTTCCCTAAAAAATTAGC------ ---------------------------------------------------------CTG TCT----------------------------------- >K03455|HIVHXB2CG_2020_2541_3_0_0_6_0_0_2f/1 AAGTGCAA---------------------------------------------------- -----------------------------------GCAATCTGATTCACCCGATTTCTTC C-----------------------------------AATTATGATGACAGGTGTAGGTC- ---------------------------------------------CTACTAATACAGT-- -------------------------------------- >K03455|HIVHXB2CG_5150_5584_1_0_0_2_0_0_42/1 GAT--------------------------------------------------------- -----------------------------------------------GGTTTTATAGACA TCA---------------------------------CTATGAAAGCCCTCATCCAAGAAA -----------------AAGTTCAGAAGTACACA------------------TCCCACTA GG------------------------------------ >K03455|HIVHXB2CG_3569_4048_0_0_0_4_0_0_3e/1 AA---------------------------------------------------------- --------------------------------------------------TTTATCAAGA GCC---------------------------------ATTTAAAAATCTGAAAACAGGAAA -----------------ATATGCAAGAATGAGGGG--------------TGCCCACACTA AT------------------------------------ >K03455|HIVHXB2CG_6322_6838_1_0_0_0_1_0_63/1 AATTG----TGGGTCACAGTCT--------------ATTATGGGGTACC----------- -------TGTGTGGC---------AGGAAGCAACCACCACTCTATT-------------- ------------------------------------------TTGTGCATC--------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5794_6187_2_0_0_0_0_0_5b/1 AGCAGA--ATAGGCGTTACTCG--------------ACAGAGGAGAGCA----------- -------AGAAATGT---------AGCCAGTAGATCCTAGACTAT--------------- -------------------------------------------AGCCCTGG--------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_906_1404_1_0_0_3_0_0_45/1 -------------------------------------------GGAGCT----------- -------AGAACGAT---------TCGCAGTTAATCCTGGCGTGTTAGAAACATCAGAAG GCT---------------------------------GTAGACAAATACTGGGA------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1667_2209_4_0_0_2_0_0_2a/1 ----GAGGGGGAGTTGTTGTCT--------------GTACCCCAGACCT----------- -------GAAGCTCTCTTCTTGTGGGGCTGTTGGCTCTGGTCTGCT-------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_1644_2213_4_0_0_3_0_0_4f/1 TTCTGAGGGGGAGATGTTGTCT--------------CTAGCCCAGACCT----------- -------GAAGCTCTCTTCTGGTGGGGCAGTTGGCTCTGGTC------------------ ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5034_5548_1_0_0_4_0_0_13/1 A------------------------------------------GGGATTATG-------- ------GAAAACAGA---------TGGCAGGTGATGATTGTGTGGCAATTAGACAGGATG AGG---------------------------------ATTAGAACATGG------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_9174_9651_1_0_0_0_0_0_4e/1 ------------CGGGCACAC--------------------------------------- --------ACT--------ACTTGAAGCACTCAAGGCAAGCTTTATTGAGGCTTAAGCAG TGG---------------------------------GTTCCCTAG--TTAGC-------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_9142_9638_2_0_0_2_0_0_3c/1 ------------------------------------------------------------ --------------------CTTGAAGCACTCAAGGCAAGCTTTATTGCGGCTTAATCAG TGG---------------------------------GTTCCCTAG--TTAGCCAGA---- -----------------------------------------------------GAGCTCC CA------------------------------------ >K03455|HIVHXB2CG_8231_8877_0_0_0_3_0_0_25/1 ------------------------------------------------------------ ----------------TGCTGCTGGCTCAGCTCGTCT---CATTCATTCCCTTACAGTAG GCC---------------------------------ATCCAATCACACTACATATT---- --------------------------------------------------------GACC AC------------------------------------ >K03455|HIVHXB2CG_8446_8894_4_0_0_3_0_0_10/1 ------------GCTGCTCCC--------------------------------------- --------ACCCTATCTTGTGCTGGCTCAGCTCGTCT---CATTGTTTCCCTTACAGTAG GCC---------------------------------ATCCAATCA--------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5329_5821_2_0_0_2_0_0_43/1 ------------------------------------------------------------ -------------------TCCTCTGTCGAGTAACGC---CTATTCTGCTATGACGACAC CCA---------------------------------ATTCTGAAA--CTGGATAAA---- ---------------------------------------------------CAGCAGTTG TT------------------------------------ >K03455|HIVHXB2CG_7972_8486_1_0_0_0_0_0_e/1 ------------------------------------------------------------ ---------------------------------------------------TGCCAAGGA TCC---------------------------------GTTCACTAA--TCGAATGGA---- ----------------------TCTGTCTCTGTCTCTCTCTCCACCTTCTTCTTCTATTC CT------------------------------------ >K03455|HIVHXB2CG_2808_3255_0_0_0_1_0_0_22/1 ------------------------------------------------------------ -------------------TTCTGGGAAGTTCAAT----------------TAGGAATAC CAC---------------------------------ATCCCGCAGGGTTAAAAAAG---- ----------------------AAAAAATCAGT------------------AACAGTACT GG------------------------------------ >K03455|HIVHXB2CG_3580_4035_1_0_0_0_0_0_3/1 ------------------------------------------------------------ -------------------CTATG------TTTAC----------------TTCTAATCC CGA---------------------------------ATCCTGCAAAGCTAGATAAAT--- ------------------TGCTTGTAACTCAGTC-----------------TTCTGATTT GT------------------------------------ >K03455|HIVHXB2CG_9061_9383_1_0_0_4_0_0_3b/1 ------------C------ACTTATTAAA-----AGAAAAGGGGGGACTGGA-------- ------AGGGCTAATTCACTCCCAAAGAAGACAAG----ATATCCTTGATC--------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_9067_9580_2_0_0_1_0_0_4c/1 ------------------------TTAAA-----AGAAAAGGGGGGACTGGA-------- ------AGGGCTAATTCACTGCCAAAGAAGACAAG----ATATCCTTGATCTGAGGA--- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_7_537_2_0_0_1_0_0_1e/1 ------------------------------------------------------------ --------GGCTAATTCACTCCCAACGAAGACAAG----ATATCCTTGATCTGTGGATGT ACC---------------------------------ACCCACAAG--------------- ----------------------------------------------------GCTACTTC CC------------------------------------ >K03455|HIVHXB2CG_4165_4569_2_0_0_3_0_0_8/1 --------------------------------------ACAACGGAATTGG--------- --------AGGAAATGAACCAGTAGATAAATTAGT----CAGTGCTGGAATCAGGAAAGT ACT---------------------------------ATTTTT------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_3703_4231_2_0_0_1_0_0_62/1 ----------------------------------------AATAGTACTTT--------- --------CCTGATTCCAGCACTGACTAAATTATC----TACTTGTTCATTTCCTCCAAT TCC---------------------------------TTTGTGTG---------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5977_6467_2_0_0_2_0_0_1/1 ----------------------------------GAAGAAGCGGAGACAGC--------- --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTCAATCAA ATC---------------------------------AG---------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5968_6386_1_0_0_1_0_0_d/1 --------------------CTATGGCAG-----GAAGAAGCGGAGACAGC--------- --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTGTA---- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5989_6545_2_0_0_1_0_0_19/1 ----------------------------------------------ACAGC--------- --------GACGAAGAGCTCATCAGAACAGACAGA----CTCATCAAGCTTCTCTATCAA AGC---------------------------------AGTAAGTA---------------- -----------------------------------------------------TTACAT- -------------------------------------- >K03455|HIVHXB2CG_3875_4298_2_0_0_1_0_0_24/1 ------------------------------------------------------------ --------------------------------------------------------AGCC ATT---------------------------------GCTCTCCAA--TTACTGTGA---- ----------------------TATTTCTCATGTTCATCTTGGGCCTT----AACTATTC CATCTA----------------------AAAAT----- >K03455|HIVHXB2CG_1312_1798_2_0_0_1_0_0_a/1 ------------------------------------------------------------ --------------------------------------------------TTATCAGAAG G------------------------------AGCCACCCCACAAGATTTAAAC------- ----------------------------------------------------ACCATGCT ACACCC-------AGTGGGGGGACATCAAGCAGCCA-- >K03455|HIVHXB2CG_1302_1790_0_0_0_1_0_0_1c/1 ------------------------------------------------------------ ----------------------------------------GTTTTCAGCATTATCAGAAG G------------------------------AGCCACCCCACAAGATTTAAAC------- ----------------------------------------------------ACCATGCT AAACAC-------AGTGGGGGGACAT------------ >K03455|HIVHXB2CG_1286_1769_0_0_0_4_0_0_0/1 ------------------------------------------------------------ ------------------------CAGAAGTGATACCCATGTTTTCAGCATTATCAGAAG G------------------------------AGCCACCCCACAAGATTTAAAC------- ----------------------------------------------------ACCATGCT AAA----------------------------------- >K03455|HIVHXB2CG_6810_7300_0_0_0_0_0_0_2d/1 ------------------------------------------------------------ ------------------------TGT-------------AACACCTCAGTCATTA---- --CACAGG--------------CCTGTCCAAAGGTATCCTTTGAGCCAATTCC------- ----------------------------------------------------CATACATT ATTGTG-------------------------------- >K03455|HIVHXB2CG_6323_6872_1_0_0_2_0_0_50/1 ------------------------------------------------------------ ------------------------ATG-------------TATG---------------- -----GGA--------------ATTGGCTGAAAGGATACCTTTGGACAGGCCT------- ----------------------------------------------------GAGTAATG ACTGAGGTGTTACAA---------CTTGTC-------- >K03455|HIVHXB2CG_7609_8146_1_0_0_1_0_0_5e/1 ------------------------------------------------------------ ------------------------AA--------------GCTTGTGTAATTGTTAATTT C---TCTG--------------TCCCACTCCATCCAGGTCGTGTGATTCCAAC------- ----------------------------------------------------TCTGTTCC AG--------------------------AG-------- >K03455|HIVHXB2CG_2685_3250_0_0_0_0_0_0_46/1 ------------------------------------------------------------ ------------------------AA--------------AATTTCAAA----------- -------------------------------AATTGGGCCTGAAAATCCATAC------- ----------------------------------------------------AATACTCC AGTATT-TGCCATAAAGAAAAAAGACAGTA-------- >K03455|HIVHXB2CG_217_724_2_1_0_2_0_0_36/1 ------------------------------------------------------------ ------------------------GC--------------CTGCATGGAATGGATGACCC GGAGAGAG--------------AAGTGTTAGAGTGGAGGTTTGAGAGCCACCT------- ----------------------------------------------------AGCAATTC A------------------------------------- >K03455|HIVHXB2CG_8325_8818_2_0_0_2_0_0_15/1 ------------------------------------------------------------ ------------------------GTA-------------CTTTCTATAGTGAATAGAGT TAGGCAGG--------------TATATTCACCATTATCGTTTGAGACCCACCT------- ----------------------------------------------------CCCAACCC -------------------------------------- >K03455|HIVHXB2CG_756_1235_2_0_0_1_0_0_34/1 ------------------------------------------------------------ ----------------------------------------------GGT----------- -------------------------------GATATGGGCTGATGTACCATTT------- ----------------------------------------------------GCCCCTGG ATGTTC-TGCACTATAGGGTAATTTTGGCTGACCTGAT >K03455|HIVHXB2CG_1835_2322_3_0_0_1_0_0_57/1 ------------------------------------------------------------ ------------------------ATAGAG----------CTTCCTTTAGTTGCCCCCCT ATCTTTAT--------------TGTGACGAGGGGACGTTGCCAAAGAGTGACC------- ----------------------------------------------------TG------ --------------------AGG--------------- >K03455|HIVHXB2CG_2894_3537_2_0_0_0_0_0_18/1 ------------------------------------------------------------ ------------------------------------------------------------ TTTTTCAG--------------TTCGCTTAGATGAAGACTTCAGGCAGTATAC------- ----------------------------------------------------TGCATTTA CCATACCTAGTATAAACAATGAG--------------- >K03455|HIVHXB2CG_3672_4151_0_0_0_1_0_0_27/1 ------------------------------------------------------------ -----------------ATAACCACAGAA-----------------AGCATAGTAATATG G------------------------------GGAAAGACTCCTAAATTTAAACT------ ---------------------------------------------------GCCCATACA AAA---------------GGAAACAT------------ >K03455|HIVHXB2CG_4939_5430_1_0_0_0_0_0_49/1 ------------------------------------------------------------ --------GACCAGCAAAGCACCTCTGGAA----------AGGTGAAGGGGCAGTAGTAA TACAAGAT--------------AATAGTGACATAAAAGTAGT------------------ ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_4957_5462_2_0_0_1_0_0_2e/1 ------------------------------------------------------------ --------------------------GGAA----------AGGTGAAGGGGCAGTAGTAA TACAAGAT--------------AATAGTGACATAACAGTAGTG----------------- ------------------------------------------------------------ -------------------CGAAGAAGAAAAGCAAA-- >K03455|HIVHXB2CG_3027_3517_0_0_0_6_0_0_53/1 ------------------------------------------------------------ -----------------------------------------TTTTATGGTTCATAATCCA CTCCATGT--------------ACTGGTTCTTTTAGAATCTCTCATTTTTCT-------- ---------------------------------------------------GCCCGTTCT AGCT---------------------------------- >K03455|HIVHXB2CG_3441_3888_1_0_0_0_0_0_5c/1 ------------------------------------------------------------ ------GAAGCAGAGCTAGAACTGGCAGAA----------AACAGAGAGATTCTAAAATA ACCAGTAC--------------ATGGAGTGTATTATGACC-------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_5108_5621_3_0_0_2_0_0_23/1 ------------------------------------------------------------ ------------------------------------------------CTCTAGTGTCCA TTCATTGT--------------GTGGCTCCCTCTGTGGCCCTTGGTCTTCTTGG------ ---------------------------------------------------GCTTGTTCC ATCTCTCCT----------------------------- >K03455|HIVHXB2CG_3447_3973_0_0_0_1_0_0_1f/1 -----------------------------------------------------TGATTTG TTGTGTCAGTTAGGGTGACAACT------------------TTTTGTGTTCCTCTATTAG TAACATAT--------------CCTGCTTTTCCTA------------------------- ------------------------------------------------------------ -------------------------------------- >K03455|HIVHXB2CG_2276_2810_0_0_0_0_0_0_58/1 ------------------------------------------------------------ ---------------------------GAA----------GTCTTGAGTTCTCTTATTAA --------------------------GTTCTCTGAAATCTACTAATTTTCTCCA------ ---------------------------------------------------TTTAGTACT GTCTTTTTTC---------------------------- >K03455|HIVHXB2CG_2252_2786_0_0_0_0_0_0_c/1 ------------------------------------------------------------ ------------------------------------------------------------ ---------------------------TTCTCTGAAATCTACTAATTTTCTCCA------ ---------------------------------------------------TTTAGTACT GTCTTTTTTCTTT--ATGGCAAATACTGGAGTATTG-- >K03455|HIVHXB2CG_4803_5329_1_0_0_2_0_0_1b/1 ------------------------------------------------------------ --------GGGGGGAACAGTGCAGGGGAAA----------GAATAGTAGACATAATAGCA ACAGACAT--------------ACAAACTAAAGAATTACAA------------------- ------------------------------------------------------------ -----------------------------------A-- >K03455|HIVHXB2CG_4642_5125_0_0_0_3_0_0_28/1 ------------------------------------------------------------ ------------------------------------------------------------ -----------------------------TAAGGTGTTTTACTAAACTTTTCCA------ ---------------------------------------------------TGTTGTAAT CCTCATCCTGTCTCCTTGCCACACAATCATCACCTG-- >K03455|HIVHXB2CG_368_934_2_0_0_3_0_0_f/1 ------------------------------------------------------------ -----------------------------------------CAGGATTAACTGCGAATCT T---TCTAG------------CTCCCTTGTTGCCCATACTATATGTTTTAATT------- ----------------------------------------------------TATATTTT TT--------------------------CT-------T