Mercurial > repos > dave > pipelign
diff test-data/files/input.merge.1.fas @ 0:9a3a2e04f47a draft default tip
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| author | dave |
|---|---|
| date | Mon, 10 Jun 2019 16:04:10 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/files/input.merge.1.fas Mon Jun 10 16:04:10 2019 -0400 @@ -0,0 +1,552 @@ +>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 +---------------------------------------------------------TTA +TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAC +ACCC-------AGTGGGGGGACATCAAGCAGCCA-- +>K03455|HIVHXB2CG_1302_1790_0_0_0_1_0_0_1c/1 +-----------------------------------------------GTTTTCAGCATTA +TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA +ACAC-------AGTGGGGGGACAT------------ +>K03455|HIVHXB2CG_1286_1769_0_0_0_4_0_0_0/1 +-------------------------------CAGAAGTGATACCCATGTTTTCAGCATTA +TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA +A----------------------------------- +>K03455|HIVHXB2CG_6810_7300_0_0_0_0_0_0_2d/1 +-------------------------------TGT-------------AACACCTCAGTCA +TTA------CACAGG--CCTGTCCAAAGGTATCCTTTGAGCCAATTCC--CATACATTAT +TGTG-------------------------------- +>K03455|HIVHXB2CG_6323_6872_1_0_0_2_0_0_50/1 +-------------------------------ATG-------------TATG--------- +------------GGA--ATTGGCTGAAAGGATACCTTTGGACAGGCCT--GAGTAATGAC +TGAGGTGTTACAA---------CTTGTC-------- +>K03455|HIVHXB2CG_7609_8146_1_0_0_1_0_0_5e/1 +-------------------------------AA--------------GCTTGTGTAATTG +TTAATTTC---TCTG--TCCCACTCCATCCAGGTCGTGTGATTCCAAC--TCTGTTCCAG +--------------------------AG-------- +>K03455|HIVHXB2CG_2685_3250_0_0_0_0_0_0_46/1 +-------------------------------AA--------------AATTTCAAA---- +--------------------------AATTGGGCCTGAAAATCCATAC--AATACTCCAG +TATT-TGCCATAAAGAAAAAAGACAGTA-------- +>K03455|HIVHXB2CG_217_724_2_1_0_2_0_0_36/1 +-------------------------------GC--------------CTGCATGGAATGG +ATGACCCGGAGAGAG--AAGTGTTAGAGTGGAGGTTTGAGAGCCACCT--AGCAATTCA- +------------------------------------ +>K03455|HIVHXB2CG_8325_8818_2_0_0_2_0_0_15/1 +-------------------------------GTA-------------CTTTCTATAGTGA +ATAGAGTTAGGCAGG--TATATTCACCATTATCGTTTGAGACCCACCT--CCCAACCC-- +------------------------------------ +>K03455|HIVHXB2CG_756_1235_2_0_0_1_0_0_34/1 +-----------------------------------------------------GGT---- +--------------------------GATATGGGCTGATGTACCATTT--GCCCCTGGAT +GTTC-TGCACTATAGGGTAATTTTGGCTGACCTGAT +>K03455|HIVHXB2CG_1835_2322_3_0_0_1_0_0_57/1 +-------------------------------ATAGAG----------CTTCCTTTAGTTG +CCCCCCTATCTTTAT--TGTGACGAGGGGACGTTGCCAAAGAGTGACC--TG-------- +------------------AGG--------------- +>K03455|HIVHXB2CG_2894_3537_2_0_0_0_0_0_18/1 +------------------------------------------------------------ +-------TTTTTCAG--TTCGCTTAGATGAAGACTTCAGGCAGTATAC--TGCATTTACC +ATACCTAGTATAAACAATGAG--------------- +>K03455|HIVHXB2CG_3672_4151_0_0_0_1_0_0_27/1 +------------------------ATAACCACAGAA-----------------AGCATAG +TAATATGG------------------GGAAAGACTCCTAAATTTAAACTGCCCATACAAA +A---------------GGAAACAT------------ +>K03455|HIVHXB2CG_4939_5430_1_0_0_0_0_0_49/1 +---------------GACCAGCAAAGCACCTCTGGAA----------AGGTGAAGGGGCA +GTAGTAATACAAGAT--AATAGTGACATAAAAGTAGT----------------------- +------------------------------------ +>K03455|HIVHXB2CG_4957_5462_2_0_0_1_0_0_2e/1 +---------------------------------GGAA----------AGGTGAAGGGGCA +GTAGTAATACAAGAT--AATAGTGACATAACAGTAGTG---------------------- +-----------------CGAAGAAGAAAAGCAAA-- +>K03455|HIVHXB2CG_3027_3517_0_0_0_6_0_0_53/1 +------------------------------------------------TTTTATGGTTCA +TAATCCACTCCATGT--ACTGGTTCTTTTAGAATCTCTCATTTTTCT--GCCCGTTCTAG +CT---------------------------------- +>K03455|HIVHXB2CG_3441_3888_1_0_0_0_0_0_5c/1 +-------------GAAGCAGAGCTAGAACTGGCAGAA----------AACAGAGAGATTC +TAAAATAACCAGTAC--ATGGAGTGTATTATGACC------------------------- +------------------------------------ +>K03455|HIVHXB2CG_5108_5621_3_0_0_2_0_0_23/1 +-------------------------------------------------------CTCTA +GTGTCCATTCATTGT--GTGGCTCCCTCTGTGGCCCTTGGTCTTCTTGGGCTTGTTCCAT +CTCTCCT----------------------------- +>K03455|HIVHXB2CG_3447_3973_0_0_0_1_0_0_1f/1 +TGATTTGTTGTGTCAGTTAGGGTGACAACT------------------TTTTGTGTTCCT +CTATTAGTAACATAT--CCTGCTTTTCCTA------------------------------ +------------------------------------ +>K03455|HIVHXB2CG_2276_2810_0_0_0_0_0_0_58/1 +----------------------------------GAA----------GTCTTGAGTTCTC +TTATTAA--------------GTTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT +CTTTTTTC---------------------------- +>K03455|HIVHXB2CG_2252_2786_0_0_0_0_0_0_c/1 +------------------------------------------------------------ +----------------------TTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT +CTTTTTTCTTT--ATGGCAAATACTGGAGTATTG-- +>K03455|HIVHXB2CG_4803_5329_1_0_0_2_0_0_1b/1 +---------------GGGGGGAACAGTGCAGGGGAAA----------GAATAGTAGACAT +AATAGCAACAGACAT--ACAAACTAAAGAATTACAA------------------------ +---------------------------------A-- +>K03455|HIVHXB2CG_4642_5125_0_0_0_3_0_0_28/1 +------------------------------------------------------------ +------------------------TAAGGTGTTTTACTAAACTTTTCCATGTTGTAATCC +TCATCCTGTCTCCTTGCCACACAATCATCACCTG-- +>K03455|HIVHXB2CG_368_934_2_0_0_3_0_0_f/1 +------------------------------------------------CAGGATTAACTG +CGAATCTT---TCTAGCTCCCTTGTTGCCCATACTATATGTTTTAATT--TATATTTTTT +--------------------------CT-------T