Mercurial > repos > dave > pipelign
comparison test-data/files/input.merge.1.fas @ 0:9a3a2e04f47a draft default tip
Uploaded
| author | dave |
|---|---|
| date | Mon, 10 Jun 2019 16:04:10 -0400 |
| parents | |
| children |
comparison
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| -1:000000000000 | 0:9a3a2e04f47a |
|---|---|
| 1 >K03455|HIVHXB2CG_418_930_3_0_0_1_0_0_14/1 | |
| 2 ------------------------------------------------------------ | |
| 3 ----------------------------GA------TCCTGC-------------ATATA | |
| 4 AGCAGCAGCTTTTTGCCTTT------------ACTGGTTCTCTCTGGTTAGAC------- | |
| 5 ------------------------------------------------------CAGATC | |
| 6 TGAGCCTGGG----------------------- | |
| 7 >K03455|HIVHXB2CG_7976_8475_3_0_0_1_0_0_61/1 | |
| 8 ------------------------------------------------------------ | |
| 9 ---------------------------CAG------ATACCT-------------AAATG | |
| 10 ATCAACAGCTCCTGGGGATT-------------TGGGGTTGCTCTGGAAAACT------- | |
| 11 ------------------------------------------------------CATTTG | |
| 12 CACCCCTGCT----------------------- | |
| 13 >K03455|HIVHXB2CG_7932_8405_1_0_0_1_0_0_17/1 | |
| 14 GTCTGG------------------------------------GGCATCAAGCAGCTCCAG | |
| 15 G-------CAAGAATGCTGGCTGTGGAAAG------ATACCT-------------AAAGG | |
| 16 ATCAACAGCTCC------------------------------------------------ | |
| 17 ------------------------------------------------------------ | |
| 18 --------------------------------- | |
| 19 >K03455|HIVHXB2CG_6869_7379_1_0_0_3_0_1_11/1 | |
| 20 ------------------------------------------------------------ | |
| 21 -------------------ACAGTAGAAAA------ATTCCCCTCCACCATTAAAACTGT | |
| 22 GGTTACAATATC---------------------TGGGTCCCCTCC--------------- | |
| 23 -----------------------------------------------------------T | |
| 24 GAGGATTGGT----------------------- | |
| 25 >K03455|HIVHXB2CG_6865_7379_1_0_0_0_0_1_4d/1 | |
| 26 ------------------------------------------------------------ | |
| 27 -------------------ACAGTAGAAAA------ATTCCCCTCCACAATTAAAACTGT | |
| 28 GGTTACAATTTC---------------------TGGGTCCCCTCC--------------- | |
| 29 -----------------------------------------------------------T | |
| 30 GAGGATTGCT----------------------- | |
| 31 >K03455|HIVHXB2CG_8069_8641_1_0_0_0_0_0_38/1 | |
| 32 TCCTG------------------------------------------------ACTCCAA | |
| 33 ------------------TACTGTAGGAGA------TTCCAC------------------ | |
| 34 -----CAATATT---------------------TGAGGGCTTCCCACCCCCTG------- | |
| 35 ------------------------------------------------------CGTCCC | |
| 36 AGAAGTT-------------------------- | |
| 37 >K03455|HIVHXB2CG_6040_6545_1_0_0_0_0_0_2/1 | |
| 38 ----------------------------------------------------ATCCTCAT | |
| 39 -------------GCATCTGTTCTACCATG------TCATTTTT-----------CCACA | |
| 40 TGTTAAAATTTTCTGT-----------------CACATTTAC---CAATACT-------- | |
| 41 ------------------------------------------------------------ | |
| 42 --------------------------------- | |
| 43 >K03455|HIVHXB2CG_6480_6947_0_0_0_2_0_0_32/1 | |
| 44 ----------------------------------------------------TT------ | |
| 45 ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG | |
| 46 TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA-------- | |
| 47 ------------------------------------------------------------ | |
| 48 ---------------TGAGGATATAA------- | |
| 49 >K03455|HIVHXB2CG_6482_6962_0_0_0_1_0_0_35/1 | |
| 50 ------------------------------------------------------------ | |
| 51 ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG | |
| 52 TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA-------- | |
| 53 ------------------------------------------------------------ | |
| 54 ---------------TGAGGATATAAT-----C | |
| 55 >K03455|HIVHXB2CG_5990_6505_1_0_0_0_0_0_3f/1 | |
| 56 ------------------------------------------------------------ | |
| 57 ------------------------------------------------------------ | |
| 58 --TTAAAATTTTCTGT-----------------CACATTTAC---CAATACTA------- | |
| 59 ------------------------------------------------------CTTCTT | |
| 60 GTGGGTTGGGGTCTGTGGGTACACAGGCATGTG | |
| 61 >K03455|HIVHXB2CG_2700_3243_0_0_0_3_1_0_51/1 | |
| 62 ------------------------------------------------------------ | |
| 63 --------------CACCCATCCAAAGGAA------TTGAGGTT-----------CTTT- | |
| 64 --CTGATGTTTTTTGT-----------------CTGGTGTGG---TAAGTCCC------- | |
| 65 ------------------------------------------------------CACCTC | |
| 66 GACAG---------------------------- | |
| 67 >K03455|HIVHXB2CG_313_880_0_0_0_2_0_0_54/1 | |
| 68 CTTTA------------------------------------------TATTTTTTCTTAC | |
| 69 -------------CCCCTGGCCTTAACCGA------ATTTTTTC-----------CCATC | |
| 70 GATCTAATTCTCC--------------------CCCGCTTAA------------------ | |
| 71 ------------------------------------------------------------ | |
| 72 --------------------------------- | |
| 73 >K03455|HIVHXB2CG_121_652_1_0_0_0_0_0_5f/1 | |
| 74 TCC--------------------------------------------CTGTTCG------ | |
| 75 ---------------GGCGCCACTGCTAGA------GATTTTCC-----------ACACT | |
| 76 GACTAAAAGGGTCTGA-----------------GGGA---TCTCTAGTTACC-------- | |
| 77 ------------------------------------------------------------ | |
| 78 --------------------------------- | |
| 79 >K03455|HIVHXB2CG_6045_6577_2_0_0_1_0_0_47/1 | |
| 80 ------------------------------------------AGTAAGTAGTACCTGTAA | |
| 81 C--GCAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT | |
| 82 AGCACTAATAAT------------------------------------------------ | |
| 83 ------------------------------------------------------------ | |
| 84 --------------------------------- | |
| 85 >K03455|HIVHXB2CG_6065_6509_1_0_0_1_0_0_3a/1 | |
| 86 ------------------------------------------------------------ | |
| 87 ----CAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT | |
| 88 AGCAATAATAATAGCAATAG------------TTGAGTGGTC------------------ | |
| 89 ------------------------------------------------------------ | |
| 90 ---------------------------CA---- | |
| 91 >K03455|HIVHXB2CG_4276_4897_1_0_0_1_0_0_3d/1 | |
| 92 ACAGTAA------------TTGGAG--------------AGCAATGGCTAGTGATTTTAA | |
| 93 CCTGCCACCTGTAGTAGCAA-AAGAAATAG------TAGCCCG----------------- | |
| 94 ------------------------------------------------------------ | |
| 95 ------------------------------------------------------------ | |
| 96 --------------------------------- | |
| 97 >K03455|HIVHXB2CG_3823_4361_1_0_0_0_0_0_30/1 | |
| 98 ------------------------------------------------------------ | |
| 99 ---------TATGGTACCAGTTAGAGAAAG------AACCCCTA-----------GTAGG | |
| 100 AGCAGAAACCTTCTATGTAG------------ATGGGGCAGC------------------ | |
| 101 ------------------------------------------------------------ | |
| 102 ---------------------------TAACAG | |
| 103 >K03455|HIVHXB2CG_4457_4958_4_0_0_0_0_0_44/1 | |
| 104 ---------------------------------------------AGTTCATGTATCCAG | |
| 105 T----------GGATATATAGAAGCAGAAG------TTATTCCAGCAGAAACAGGGGCTG | |
| 106 AAACAGCATAT------------------------------------------------- | |
| 107 ------------------------------------------------------------ | |
| 108 --------------------------------- | |
| 109 >K03455|HIVHXB2CG_4420_4903_1_0_0_1_0_0_31/1 | |
| 110 ATTGTACA--------CATTTAGAATGAAAAGTTATCCTGGTAGCAGTTCATGTAGCCAG | |
| 111 T----------GGATATATAGAAGCAGA-------------------------------- | |
| 112 ------------------------------------------------------------ | |
| 113 ------------------------------------------------------------ | |
| 114 --------------------------------- | |
| 115 >K03455|HIVHXB2CG_4476_4938_5_0_0_3_0_0_2b/1 | |
| 116 ------------------------------------------------------------ | |
| 117 --------------TATAAAGACGCAGAAG------TTATTCCAGCATACACAGGGCAGG | |
| 118 AAACAGCATATTTTCTTTT--------------CAAATTAG------------------- | |
| 119 ------------------------------------------------------------ | |
| 120 -----------CAG------------------- | |
| 121 >K03455|HIVHXB2CG_4053_4544_2_0_0_2_0_0_52/1 | |
| 122 ------------------------------------------------------------ | |
| 123 --------------TGCTAA-----------------------------------TTTTA | |
| 124 AAAGACAATATTCTGTTTC--------------CTGCCCTGTTTCTGCTGGAA------- | |
| 125 ------------------------------------------------------TAACTT | |
| 126 CTGCTTCTATATAT------------------- | |
| 127 >K03455|HIVHXB2CG_5585_6024_1_0_0_0_0_0_60/1 | |
| 128 ------------------------------------------------------------ | |
| 129 --------------GCCA---CAGAGGGAG------CCACACAA-----------TGAAT | |
| 130 GGACACTATAGCTTTTAGAG--GAGCTTAAGAATGAAGCTGTTA---------------- | |
| 131 ------------------------------------------------------------ | |
| 132 ------------------GA------------- | |
| 133 >K03455|HIVHXB2CG_3199_3700_2_0_0_1_0_0_4a/1 | |
| 134 ------------------------------------------------------------ | |
| 135 --------------CC--------------------CCATAT------------------ | |
| 136 ---TACTATGCTTTCTGTGGTTAATTTTTGCACTGCCTCTGTTAATTGTTTTA------- | |
| 137 ------------------------------------------------------CATCAT | |
| 138 TAG--------------TGT------------- | |
| 139 >K03455|HIVHXB2CG_673_1207_2_0_0_2_0_0_16/1 | |
| 140 ------------------------------------------------------------ | |
| 141 ----------------------CAGAGGAG------GTCTCT------------------ | |
| 142 ----------------------CGACGCAGGACTCGGCTTGCTGAAGGGCGCA------- | |
| 143 ------------------------------------------------------CGGCAA | |
| 144 GAGGCGAGGGGCGG-CGACT------------- | |
| 145 >K03455|HIVHXB2CG_667_1161_0_0_0_1_0_0_37/1 | |
| 146 ------------------------------------------------------------ | |
| 147 ----------------GGAAACCAGAGGAG------CTCTCT------------------ | |
| 148 ----------------------CGACGCAGGACTCGGCTTGCTGAAGCGCGCA------- | |
| 149 ------------------------------------------------------CGGCAA | |
| 150 GAGGCGAGGGGCG-------------------- | |
| 151 >K03455|HIVHXB2CG_1938_2460_2_0_0_0_0_0_55/1 | |
| 152 ------------------------------------------------------------ | |
| 153 --------------TAGGAACCAAAGAAAG------ATAGTT------------------ | |
| 154 ----------------------AAGTGTTTCAATTGTGGCACAGAAGGGCACA------- | |
| 155 ------------------------------------------------------CAGCCA | |
| 156 GAAATTGCAGG---------------------- | |
| 157 >K03455|HIVHXB2CG_2928_3444_5_0_0_1_0_0_5d/1 | |
| 158 CTTCTTC-----------------------------TGTTAGTGGTATTACTTCTGTTAG | |
| 159 TGCTTTGGTACCTCTAAGGAGTTTACATAA------TTGCCTTAC--------------- | |
| 160 ------------------------------------------------------------ | |
| 161 ------------------------------------------------------------ | |
| 162 --------------------------------- | |
| 163 >K03455|HIVHXB2CG_2832_3397_3_0_0_2_0_0_9/1 | |
| 164 ------------------------------------------------------------ | |
| 165 ----------------AGGATTTTACATAA------TTGCCTTACTTAAATCCCTGGGTA | |
| 166 AATCTGACTTGCCCAATT---------------CAATTTCCCCA---------------- | |
| 167 -----------------------------------------------------------C | |
| 168 TA------------------------------- | |
| 169 >K03455|HIVHXB2CG_7233_7687_1_0_0_1_0_0_5a/1 | |
| 170 ------------------------------------------------------------ | |
| 171 -------------ACTTTATATTTATATAA------TTCACTTCTCCAATTGTCC----- | |
| 172 -----------CTCATCT---------------CTCCTCCTCCAGGTCTGAAG------- | |
| 173 -------------------------------------------------------ATCTC | |
| 174 GG------------------------------- | |
| 175 >K03455|HIVHXB2CG_7273_7731_1_0_0_5_0_0_6/1 | |
| 176 TCTTTGC-----------------------------CTTGGTTGGAGCAACTCCTAATGG | |
| 177 TTGAATTTTTACTACTTTATATTTATATAA------TTCCCTTCT--------------- | |
| 178 ------------------------------------------------------------ | |
| 179 ------------------------------------------------------------ | |
| 180 --------------------------------- | |
| 181 >K03455|HIVHXB2CG_8342_8779_1_0_0_2_0_0_40/1 | |
| 182 ------------------------------------------------------------ | |
| 183 -----------------------TCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG | |
| 184 GCGCATAGCTCTACAAGC---------------TCCTTGTACTACTTCAATAA------- | |
| 185 ------------------------------------------------------------ | |
| 186 --------------------------------- | |
| 187 >K03455|HIVHXB2CG_8349_8802_1_0_0_0_0_0_29/1 | |
| 188 -----------------------------------------------------------A | |
| 189 CCCATCTTATAGCA-AAATCCTTTCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG | |
| 190 GCGAATAGCTCTACA--------------------------------------------- | |
| 191 ------------------------------------------------------------ | |
| 192 --------------------------------- | |
| 193 >K03455|HIVHXB2CG_1235_1682_3_0_0_0_0_0_56/1 | |
| 194 ------------------------------------------------------------ | |
| 195 ----------TCTACATAGTCTCTAAAGGGTTCCTTTGGTCCTTGTCTTATGTCCAGAAT | |
| 196 GCTGGTAGGGCT------------------------AT---------ACATTC------- | |
| 197 ------------------------------------------------------------ | |
| 198 --------------------------------- | |
| 199 >K03455|HIVHXB2CG_5438_5909_1_0_0_4_0_0_7/1 | |
| 200 ------------------------------------------------------------ | |
| 201 ----------AATA-GCAATTTGTACAAG-------CAGTTTTAGGCTGACTTCGTGGAT | |
| 202 GCTTCCAGGGCT------------------------CTCGTCTA-GGATCAAC------- | |
| 203 ------------------------------------------------------------ | |
| 204 --------------------------------- | |
| 205 >K03455|HIVHXB2CG_6619_7094_0_0_0_2_0_0_41/1 | |
| 206 ------------------------------------------------------------ | |
| 207 ----------TGTG-TTCAGCTGTACTAT-------TATGGTTATAGCATTTTCCGTGAA | |
| 208 ATTGACAGATCTAATTAC---------------TACCTCTTCT----------------- | |
| 209 ------------------------------------------------------------ | |
| 210 --------------------------------- | |
| 211 >K03455|HIVHXB2CG_5574_6092_2_0_0_1_0_0_5/1 | |
| 212 ------------------------------------------------------------ | |
| 213 ----------------------------------------CTACTATTGCTACTAATGGT | |
| 214 ATAGGTTGCGTTACATGT---------------ACTACTTACTGCTTTGATAGA------ | |
| 215 -----------------------------------------------------GAAGCTT | |
| 216 GAT-----------------------------G | |
| 217 >K03455|HIVHXB2CG_7126_7621_1_1_1_3_1_0_26/1 | |
| 218 --------------------------------------TCGGAGTCATTGTTGCTATTAC | |
| 219 CACCATCTTTTGTTCATAGCAGCCCTGTAA------TATTTGATT--------------- | |
| 220 ------------------------------------------------------------ | |
| 221 ------------------------------------------------------AACATC | |
| 222 TAA------------------------------ | |
| 223 >K03455|HIVHXB2CG_3596_4110_1_0_0_2_0_0_59/1 | |
| 224 ---------------------------------------------------TTTGATTG- | |
| 225 -ACTAACTCTGATTCACTTTGATCTTGTAG------TGCTTGAAT--------------- | |
| 226 ------------------------------------------------------------ | |
| 227 ------------------------------------------------------GATTCC | |
| 228 TAATGCATAT-----TGTGA----------GTC | |
| 229 >K03455|HIVHXB2CG_1707_2205_1_0_0_3_0_0_48/1 | |
| 230 -----------------------CGAGCA-----AGCTTCACAGGAGTTAAA-------- | |
| 231 -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG | |
| 232 AACCCAGAT--------------------------------------------------- | |
| 233 ------------------------------------------------------------ | |
| 234 --------------------------------- | |
| 235 >K03455|HIVHXB2CG_1717_2240_0_0_0_2_0_0_4b/1 | |
| 236 --------------------------------------TCACAGGAGGTAAA-------- | |
| 237 -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG | |
| 238 AACCCAGATTGTAAGA-----------------CTA------------------------ | |
| 239 ------------------------------------------------------------ | |
| 240 --------------------------------- | |
| 241 >K03455|HIVHXB2CG_1739_2301_2_0_0_2_0_0_33/1 | |
| 242 ------------------------------------------------------------ | |
| 243 -------------------------------TGACAGAAACCTAGTTGGTCCAAAATGCG | |
| 244 AACCCAGATTGTAAGA-----------------CAATTTTAAAAGCATTGGGACCAGC-- | |
| 245 ------------------------------------------------------------ | |
| 246 --------------------------------- | |
| 247 >K03455|HIVHXB2CG_1786_2269_1_0_0_1_0_0_39/1 | |
| 248 ------------------------------------------------------------ | |
| 249 ------------------------------------------------------------ | |
| 250 -----------------------------------ATTTTAAAAGCATTGGGACCAGCGG | |
| 251 CTACACTAGAAGAAATGATGACAGCATGTCAGGGAG-------------TAGGATGAC-- | |
| 252 --------------------------------- | |
| 253 >K03455|HIVHXB2CG_6501_7035_0_0_0_0_0_0_b/1 | |
| 254 ------------------------------------------------------------ | |
| 255 ------------------------------------CTACCTCTTCTTCTGCTAGACTGC | |
| 256 C-----------------------------------ATTTAACAGCAGTTGAGTTGATA- | |
| 257 ---------------------------------------------CTACTGGCCTAATTC | |
| 258 CATGT--------------------------GT | |
| 259 >K03455|HIVHXB2CG_6976_7493_0_0_0_0_0_0_12/1 | |
| 260 ------------------------------------------------------------ | |
| 261 ----------------------TTAGGCCAGTAGTATCAACTCAACTGCTGTTAAATGGC | |
| 262 A-----------------------------------GTCTAGCAGAAGAAGAGGTAGTA- | |
| 263 ---------------------------------------------AT-------TAGATC | |
| 264 --------------------------------- | |
| 265 >K03455|HIVHXB2CG_5516_5958_3_0_0_2_0_0_20/1 | |
| 266 ---TAACG---------------------------------------------------- | |
| 267 -----------------CCACCTTTGCCTAGTGTTACGAAACTGCCAGAGGATAGATGGA | |
| 268 AC---AA----------------------------GCCCCAGAAGACGAAGGG------- | |
| 269 ------------------------------------------------------------ | |
| 270 --------------------------------- | |
| 271 >K03455|HIVHXB2CG_8434_8946_0_0_0_1_0_0_21/1 | |
| 272 GTGGAGA----------------------------------------------------- | |
| 273 ------------------------GAGAGACAGAGACAGATCCATTCGATTAGTGAACGG | |
| 274 ATCC----------------------------------TTGGCACTTATCTGGGA----- | |
| 275 ------------------------------------------------------CGATCT | |
| 276 --------------------------------- | |
| 277 >K03455|HIVHXB2CG_7957_8508_2_0_0_2_1_0_2c/1 | |
| 278 TCCGAAGA---------------------------------------------------- | |
| 279 -----------------TCGTCCCAGATAAGTGCCAAGGATCCGTTCACTACTCGAATGG | |
| 280 ATCTGA------------------------------CTCTGTCTCT-------------- | |
| 281 ---------------------------------------------------------CTC | |
| 282 --------------------------------- | |
| 283 >K03455|HIVHXB2CG_5251_5720_0_0_0_1_0_0_4/1 | |
| 284 CCAAGTA----------------------------------------------------- | |
| 285 ---------------------TCCCCATAAGTTTCATAGATATGATGCCCTAAGCCATGG | |
| 286 AGCCAAA----------------------------TCCTAGGAAAATGTCTA-------- | |
| 287 ------------------------------------------------------------ | |
| 288 --------------------------------- | |
| 289 >K03455|HIVHXB2CG_5199_5715_1_0_0_2_0_0_1a/1 | |
| 290 -----TA----------------------------------------------------- | |
| 291 ---------------------TCCCCATAAGTTTCATCGATATGTTGCCCTAAGCGATGG | |
| 292 AGCCAAA----------------------------TCCTAGGAAAATGTCTAAC------ | |
| 293 ---------------------------------------------------------AGC | |
| 294 --------------------------------- | |
| 295 >K03455|HIVHXB2CG_1672_2143_3_0_0_2_0_0_1d/1 | |
| 296 ----TGC----------------------------------------------------- | |
| 297 ---------------------TCTGAAGAAAATTCCCTG----GCCTTCCCTTGTAGTAA | |
| 298 GGCCATA----------------------------TCTTCCCTAAAAAATTAGC------ | |
| 299 ---------------------------------------------------------CTG | |
| 300 TCT------------------------------ | |
| 301 >K03455|HIVHXB2CG_2020_2541_3_0_0_6_0_0_2f/1 | |
| 302 AAGTGCAA---------------------------------------------------- | |
| 303 -----------------------------------GCAATCTGATTCACCCGATTTCTTC | |
| 304 C-----------------------------------AATTATGATGACAGGTGTAGGTC- | |
| 305 ---------------------------------------------CTACTAATACAGT-- | |
| 306 --------------------------------- | |
| 307 >K03455|HIVHXB2CG_5150_5584_1_0_0_2_0_0_42/1 | |
| 308 GAT--------------------------------------------------------- | |
| 309 -----------------------------------------------GGTTTTATAGACA | |
| 310 TCA---------------------------------CTATGAAAGCCCTCATCCAAGAAA | |
| 311 -----------------AAGTTCAGAAGTACACA------------------TCCCACTA | |
| 312 GG------------------------------- | |
| 313 >K03455|HIVHXB2CG_3569_4048_0_0_0_4_0_0_3e/1 | |
| 314 AA---------------------------------------------------------- | |
| 315 --------------------------------------------------TTTATCAAGA | |
| 316 GCC---------------------------------ATTTAAAAATCTGAAAACAGGAAA | |
| 317 -----------------ATATGCAAGAATGAGGGG--------------TGCCCACACTA | |
| 318 AT------------------------------- | |
| 319 >K03455|HIVHXB2CG_6322_6838_1_0_0_0_1_0_63/1 | |
| 320 AATTG----TGGGTCACAGTCT--------------ATTATGGGGTACC----------- | |
| 321 -------TGTGTGGC---------AGGAAGCAACCACCACTCTATT-------------- | |
| 322 ------------------------------------------TTGTGCATC--------- | |
| 323 ------------------------------------------------------------ | |
| 324 --------------------------------- | |
| 325 >K03455|HIVHXB2CG_5794_6187_2_0_0_0_0_0_5b/1 | |
| 326 AGCAGA--ATAGGCGTTACTCG--------------ACAGAGGAGAGCA----------- | |
| 327 -------AGAAATGT---------AGCCAGTAGATCCTAGACTAT--------------- | |
| 328 -------------------------------------------AGCCCTGG--------- | |
| 329 ------------------------------------------------------------ | |
| 330 --------------------------------- | |
| 331 >K03455|HIVHXB2CG_906_1404_1_0_0_3_0_0_45/1 | |
| 332 -------------------------------------------GGAGCT----------- | |
| 333 -------AGAACGAT---------TCGCAGTTAATCCTGGCGTGTTAGAAACATCAGAAG | |
| 334 GCT---------------------------------GTAGACAAATACTGGGA------- | |
| 335 ------------------------------------------------------------ | |
| 336 --------------------------------- | |
| 337 >K03455|HIVHXB2CG_1667_2209_4_0_0_2_0_0_2a/1 | |
| 338 ----GAGGGGGAGTTGTTGTCT--------------GTACCCCAGACCT----------- | |
| 339 -------GAAGCTCTCTTCTTGTGGGGCTGTTGGCTCTGGTCTGCT-------------- | |
| 340 ------------------------------------------------------------ | |
| 341 ------------------------------------------------------------ | |
| 342 --------------------------------- | |
| 343 >K03455|HIVHXB2CG_1644_2213_4_0_0_3_0_0_4f/1 | |
| 344 TTCTGAGGGGGAGATGTTGTCT--------------CTAGCCCAGACCT----------- | |
| 345 -------GAAGCTCTCTTCTGGTGGGGCAGTTGGCTCTGGTC------------------ | |
| 346 ------------------------------------------------------------ | |
| 347 ------------------------------------------------------------ | |
| 348 --------------------------------- | |
| 349 >K03455|HIVHXB2CG_5034_5548_1_0_0_4_0_0_13/1 | |
| 350 A------------------------------------------GGGATTATG-------- | |
| 351 ------GAAAACAGA---------TGGCAGGTGATGATTGTGTGGCAATTAGACAGGATG | |
| 352 AGG---------------------------------ATTAGAACATGG------------ | |
| 353 ------------------------------------------------------------ | |
| 354 --------------------------------- | |
| 355 >K03455|HIVHXB2CG_9174_9651_1_0_0_0_0_0_4e/1 | |
| 356 ------------CGGGCACAC--------------------------------------- | |
| 357 --------ACT--------ACTTGAAGCACTCAAGGCAAGCTTTATTGAGGCTTAAGCAG | |
| 358 TGG---------------------------------GTTCCCTAG--TTAGC-------- | |
| 359 ------------------------------------------------------------ | |
| 360 --------------------------------- | |
| 361 >K03455|HIVHXB2CG_9142_9638_2_0_0_2_0_0_3c/1 | |
| 362 ------------------------------------------------------------ | |
| 363 --------------------CTTGAAGCACTCAAGGCAAGCTTTATTGCGGCTTAATCAG | |
| 364 TGG---------------------------------GTTCCCTAG--TTAGCCAGA---- | |
| 365 -----------------------------------------------------GAGCTCC | |
| 366 CA------------------------------- | |
| 367 >K03455|HIVHXB2CG_8231_8877_0_0_0_3_0_0_25/1 | |
| 368 ------------------------------------------------------------ | |
| 369 ----------------TGCTGCTGGCTCAGCTCGTCT---CATTCATTCCCTTACAGTAG | |
| 370 GCC---------------------------------ATCCAATCACACTACATATT---- | |
| 371 --------------------------------------------------------GACC | |
| 372 AC------------------------------- | |
| 373 >K03455|HIVHXB2CG_8446_8894_4_0_0_3_0_0_10/1 | |
| 374 ------------GCTGCTCCC--------------------------------------- | |
| 375 --------ACCCTATCTTGTGCTGGCTCAGCTCGTCT---CATTGTTTCCCTTACAGTAG | |
| 376 GCC---------------------------------ATCCAATCA--------------- | |
| 377 ------------------------------------------------------------ | |
| 378 --------------------------------- | |
| 379 >K03455|HIVHXB2CG_5329_5821_2_0_0_2_0_0_43/1 | |
| 380 ------------------------------------------------------------ | |
| 381 -------------------TCCTCTGTCGAGTAACGC---CTATTCTGCTATGACGACAC | |
| 382 CCA---------------------------------ATTCTGAAA--CTGGATAAA---- | |
| 383 ---------------------------------------------------CAGCAGTTG | |
| 384 TT------------------------------- | |
| 385 >K03455|HIVHXB2CG_7972_8486_1_0_0_0_0_0_e/1 | |
| 386 ------------------------------------------------------------ | |
| 387 ---------------------------------------------------TGCCAAGGA | |
| 388 TCC---------------------------------GTTCACTAA--TCGAATGGA---- | |
| 389 ----------------------TCTGTCTCTGTCTCTCTCTCCACCTTCTTCTTCTATTC | |
| 390 CT------------------------------- | |
| 391 >K03455|HIVHXB2CG_2808_3255_0_0_0_1_0_0_22/1 | |
| 392 ------------------------------------------------------------ | |
| 393 -------------------TTCTGGGAAGTTCAAT----------------TAGGAATAC | |
| 394 CAC---------------------------------ATCCCGCAGGGTTAAAAAAG---- | |
| 395 ----------------------AAAAAATCAGT------------------AACAGTACT | |
| 396 GG------------------------------- | |
| 397 >K03455|HIVHXB2CG_3580_4035_1_0_0_0_0_0_3/1 | |
| 398 ------------------------------------------------------------ | |
| 399 -------------------CTATG------TTTAC----------------TTCTAATCC | |
| 400 CGA---------------------------------ATCCTGCAAAGCTAGATAAAT--- | |
| 401 ------------------TGCTTGTAACTCAGTC-----------------TTCTGATTT | |
| 402 GT------------------------------- | |
| 403 >K03455|HIVHXB2CG_9061_9383_1_0_0_4_0_0_3b/1 | |
| 404 ------------C------ACTTATTAAA-----AGAAAAGGGGGGACTGGA-------- | |
| 405 ------AGGGCTAATTCACTCCCAAAGAAGACAAG----ATATCCTTGATC--------- | |
| 406 ------------------------------------------------------------ | |
| 407 ------------------------------------------------------------ | |
| 408 --------------------------------- | |
| 409 >K03455|HIVHXB2CG_9067_9580_2_0_0_1_0_0_4c/1 | |
| 410 ------------------------TTAAA-----AGAAAAGGGGGGACTGGA-------- | |
| 411 ------AGGGCTAATTCACTGCCAAAGAAGACAAG----ATATCCTTGATCTGAGGA--- | |
| 412 ------------------------------------------------------------ | |
| 413 ------------------------------------------------------------ | |
| 414 --------------------------------- | |
| 415 >K03455|HIVHXB2CG_7_537_2_0_0_1_0_0_1e/1 | |
| 416 ------------------------------------------------------------ | |
| 417 --------GGCTAATTCACTCCCAACGAAGACAAG----ATATCCTTGATCTGTGGATGT | |
| 418 ACC---------------------------------ACCCACAAG--------------- | |
| 419 ----------------------------------------------------GCTACTTC | |
| 420 CC------------------------------- | |
| 421 >K03455|HIVHXB2CG_4165_4569_2_0_0_3_0_0_8/1 | |
| 422 --------------------------------------ACAACGGAATTGG--------- | |
| 423 --------AGGAAATGAACCAGTAGATAAATTAGT----CAGTGCTGGAATCAGGAAAGT | |
| 424 ACT---------------------------------ATTTTT------------------ | |
| 425 ------------------------------------------------------------ | |
| 426 --------------------------------- | |
| 427 >K03455|HIVHXB2CG_3703_4231_2_0_0_1_0_0_62/1 | |
| 428 ----------------------------------------AATAGTACTTT--------- | |
| 429 --------CCTGATTCCAGCACTGACTAAATTATC----TACTTGTTCATTTCCTCCAAT | |
| 430 TCC---------------------------------TTTGTGTG---------------- | |
| 431 ------------------------------------------------------------ | |
| 432 --------------------------------- | |
| 433 >K03455|HIVHXB2CG_5977_6467_2_0_0_2_0_0_1/1 | |
| 434 ----------------------------------GAAGAAGCGGAGACAGC--------- | |
| 435 --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTCAATCAA | |
| 436 ATC---------------------------------AG---------------------- | |
| 437 ------------------------------------------------------------ | |
| 438 --------------------------------- | |
| 439 >K03455|HIVHXB2CG_5968_6386_1_0_0_1_0_0_d/1 | |
| 440 --------------------CTATGGCAG-----GAAGAAGCGGAGACAGC--------- | |
| 441 --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTGTA---- | |
| 442 ------------------------------------------------------------ | |
| 443 ------------------------------------------------------------ | |
| 444 --------------------------------- | |
| 445 >K03455|HIVHXB2CG_5989_6545_2_0_0_1_0_0_19/1 | |
| 446 ----------------------------------------------ACAGC--------- | |
| 447 --------GACGAAGAGCTCATCAGAACAGACAGA----CTCATCAAGCTTCTCTATCAA | |
| 448 AGC---------------------------------AGTAAGTA---------------- | |
| 449 -----------------------------------------------------TTACAT- | |
| 450 --------------------------------- | |
| 451 >K03455|HIVHXB2CG_3875_4298_2_0_0_1_0_0_24/1 | |
| 452 ------------------------------------------------------------ | |
| 453 --------------------------------------------------------AGCC | |
| 454 ATT---------------------------------GCTCTCCAA--TTACTGTGA---- | |
| 455 ----------------------TATTTCTCATGTTCATCTTGGGCCTT----AACTATTC | |
| 456 CATCTA----------------------AAAAT | |
| 457 >K03455|HIVHXB2CG_1312_1798_2_0_0_1_0_0_a/1 | |
| 458 ---------------------------------------------------------TTA | |
| 459 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAC | |
| 460 ACCC-------AGTGGGGGGACATCAAGCAGCCA-- | |
| 461 >K03455|HIVHXB2CG_1302_1790_0_0_0_1_0_0_1c/1 | |
| 462 -----------------------------------------------GTTTTCAGCATTA | |
| 463 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA | |
| 464 ACAC-------AGTGGGGGGACAT------------ | |
| 465 >K03455|HIVHXB2CG_1286_1769_0_0_0_4_0_0_0/1 | |
| 466 -------------------------------CAGAAGTGATACCCATGTTTTCAGCATTA | |
| 467 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA | |
| 468 A----------------------------------- | |
| 469 >K03455|HIVHXB2CG_6810_7300_0_0_0_0_0_0_2d/1 | |
| 470 -------------------------------TGT-------------AACACCTCAGTCA | |
| 471 TTA------CACAGG--CCTGTCCAAAGGTATCCTTTGAGCCAATTCC--CATACATTAT | |
| 472 TGTG-------------------------------- | |
| 473 >K03455|HIVHXB2CG_6323_6872_1_0_0_2_0_0_50/1 | |
| 474 -------------------------------ATG-------------TATG--------- | |
| 475 ------------GGA--ATTGGCTGAAAGGATACCTTTGGACAGGCCT--GAGTAATGAC | |
| 476 TGAGGTGTTACAA---------CTTGTC-------- | |
| 477 >K03455|HIVHXB2CG_7609_8146_1_0_0_1_0_0_5e/1 | |
| 478 -------------------------------AA--------------GCTTGTGTAATTG | |
| 479 TTAATTTC---TCTG--TCCCACTCCATCCAGGTCGTGTGATTCCAAC--TCTGTTCCAG | |
| 480 --------------------------AG-------- | |
| 481 >K03455|HIVHXB2CG_2685_3250_0_0_0_0_0_0_46/1 | |
| 482 -------------------------------AA--------------AATTTCAAA---- | |
| 483 --------------------------AATTGGGCCTGAAAATCCATAC--AATACTCCAG | |
| 484 TATT-TGCCATAAAGAAAAAAGACAGTA-------- | |
| 485 >K03455|HIVHXB2CG_217_724_2_1_0_2_0_0_36/1 | |
| 486 -------------------------------GC--------------CTGCATGGAATGG | |
| 487 ATGACCCGGAGAGAG--AAGTGTTAGAGTGGAGGTTTGAGAGCCACCT--AGCAATTCA- | |
| 488 ------------------------------------ | |
| 489 >K03455|HIVHXB2CG_8325_8818_2_0_0_2_0_0_15/1 | |
| 490 -------------------------------GTA-------------CTTTCTATAGTGA | |
| 491 ATAGAGTTAGGCAGG--TATATTCACCATTATCGTTTGAGACCCACCT--CCCAACCC-- | |
| 492 ------------------------------------ | |
| 493 >K03455|HIVHXB2CG_756_1235_2_0_0_1_0_0_34/1 | |
| 494 -----------------------------------------------------GGT---- | |
| 495 --------------------------GATATGGGCTGATGTACCATTT--GCCCCTGGAT | |
| 496 GTTC-TGCACTATAGGGTAATTTTGGCTGACCTGAT | |
| 497 >K03455|HIVHXB2CG_1835_2322_3_0_0_1_0_0_57/1 | |
| 498 -------------------------------ATAGAG----------CTTCCTTTAGTTG | |
| 499 CCCCCCTATCTTTAT--TGTGACGAGGGGACGTTGCCAAAGAGTGACC--TG-------- | |
| 500 ------------------AGG--------------- | |
| 501 >K03455|HIVHXB2CG_2894_3537_2_0_0_0_0_0_18/1 | |
| 502 ------------------------------------------------------------ | |
| 503 -------TTTTTCAG--TTCGCTTAGATGAAGACTTCAGGCAGTATAC--TGCATTTACC | |
| 504 ATACCTAGTATAAACAATGAG--------------- | |
| 505 >K03455|HIVHXB2CG_3672_4151_0_0_0_1_0_0_27/1 | |
| 506 ------------------------ATAACCACAGAA-----------------AGCATAG | |
| 507 TAATATGG------------------GGAAAGACTCCTAAATTTAAACTGCCCATACAAA | |
| 508 A---------------GGAAACAT------------ | |
| 509 >K03455|HIVHXB2CG_4939_5430_1_0_0_0_0_0_49/1 | |
| 510 ---------------GACCAGCAAAGCACCTCTGGAA----------AGGTGAAGGGGCA | |
| 511 GTAGTAATACAAGAT--AATAGTGACATAAAAGTAGT----------------------- | |
| 512 ------------------------------------ | |
| 513 >K03455|HIVHXB2CG_4957_5462_2_0_0_1_0_0_2e/1 | |
| 514 ---------------------------------GGAA----------AGGTGAAGGGGCA | |
| 515 GTAGTAATACAAGAT--AATAGTGACATAACAGTAGTG---------------------- | |
| 516 -----------------CGAAGAAGAAAAGCAAA-- | |
| 517 >K03455|HIVHXB2CG_3027_3517_0_0_0_6_0_0_53/1 | |
| 518 ------------------------------------------------TTTTATGGTTCA | |
| 519 TAATCCACTCCATGT--ACTGGTTCTTTTAGAATCTCTCATTTTTCT--GCCCGTTCTAG | |
| 520 CT---------------------------------- | |
| 521 >K03455|HIVHXB2CG_3441_3888_1_0_0_0_0_0_5c/1 | |
| 522 -------------GAAGCAGAGCTAGAACTGGCAGAA----------AACAGAGAGATTC | |
| 523 TAAAATAACCAGTAC--ATGGAGTGTATTATGACC------------------------- | |
| 524 ------------------------------------ | |
| 525 >K03455|HIVHXB2CG_5108_5621_3_0_0_2_0_0_23/1 | |
| 526 -------------------------------------------------------CTCTA | |
| 527 GTGTCCATTCATTGT--GTGGCTCCCTCTGTGGCCCTTGGTCTTCTTGGGCTTGTTCCAT | |
| 528 CTCTCCT----------------------------- | |
| 529 >K03455|HIVHXB2CG_3447_3973_0_0_0_1_0_0_1f/1 | |
| 530 TGATTTGTTGTGTCAGTTAGGGTGACAACT------------------TTTTGTGTTCCT | |
| 531 CTATTAGTAACATAT--CCTGCTTTTCCTA------------------------------ | |
| 532 ------------------------------------ | |
| 533 >K03455|HIVHXB2CG_2276_2810_0_0_0_0_0_0_58/1 | |
| 534 ----------------------------------GAA----------GTCTTGAGTTCTC | |
| 535 TTATTAA--------------GTTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT | |
| 536 CTTTTTTC---------------------------- | |
| 537 >K03455|HIVHXB2CG_2252_2786_0_0_0_0_0_0_c/1 | |
| 538 ------------------------------------------------------------ | |
| 539 ----------------------TTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT | |
| 540 CTTTTTTCTTT--ATGGCAAATACTGGAGTATTG-- | |
| 541 >K03455|HIVHXB2CG_4803_5329_1_0_0_2_0_0_1b/1 | |
| 542 ---------------GGGGGGAACAGTGCAGGGGAAA----------GAATAGTAGACAT | |
| 543 AATAGCAACAGACAT--ACAAACTAAAGAATTACAA------------------------ | |
| 544 ---------------------------------A-- | |
| 545 >K03455|HIVHXB2CG_4642_5125_0_0_0_3_0_0_28/1 | |
| 546 ------------------------------------------------------------ | |
| 547 ------------------------TAAGGTGTTTTACTAAACTTTTCCATGTTGTAATCC | |
| 548 TCATCCTGTCTCCTTGCCACACAATCATCACCTG-- | |
| 549 >K03455|HIVHXB2CG_368_934_2_0_0_3_0_0_f/1 | |
| 550 ------------------------------------------------CAGGATTAACTG | |
| 551 CGAATCTT---TCTAGCTCCCTTGTTGCCCATACTATATGTTTTAATT--TATATTTTTT | |
| 552 --------------------------CT-------T |