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annotate 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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1 >K03455|HIVHXB2CG_418_930_3_0_0_1_0_0_14/1
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2 ------------------------------------------------------------
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3 ----------------------------GA------TCCTGC-------------ATATA
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4 AGCAGCAGCTTTTTGCCTTT------------ACTGGTTCTCTCTGGTTAGAC-------
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5 ------------------------------------------------------CAGATC
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6 TGAGCCTGGG----------------------------
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7 >K03455|HIVHXB2CG_7976_8475_3_0_0_1_0_0_61/1
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8 ------------------------------------------------------------
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9 ---------------------------CAG------ATACCT-------------AAATG
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10 ATCAACAGCTCCTGGGGATT-------------TGGGGTTGCTCTGGAAAACT-------
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11 ------------------------------------------------------CATTTG
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12 CACCCCTGCT----------------------------
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13 >K03455|HIVHXB2CG_7932_8405_1_0_0_1_0_0_17/1
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14 GTCTGG------------------------------------GGCATCAAGCAGCTCCAG
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15 G-------CAAGAATGCTGGCTGTGGAAAG------ATACCT-------------AAAGG
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16 ATCAACAGCTCC------------------------------------------------
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17 ------------------------------------------------------------
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18 --------------------------------------
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19 >K03455|HIVHXB2CG_6869_7379_1_0_0_3_0_1_11/1
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20 ------------------------------------------------------------
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21 -------------------ACAGTAGAAAA------ATTCCCCTCCACCATTAAAACTGT
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22 GGTTACAATATC---------------------TGGGTCCCCTCC---------------
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23 -----------------------------------------------------------T
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24 GAGGATTGGT----------------------------
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25 >K03455|HIVHXB2CG_6865_7379_1_0_0_0_0_1_4d/1
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26 ------------------------------------------------------------
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27 -------------------ACAGTAGAAAA------ATTCCCCTCCACAATTAAAACTGT
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28 GGTTACAATTTC---------------------TGGGTCCCCTCC---------------
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29 -----------------------------------------------------------T
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30 GAGGATTGCT----------------------------
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31 >K03455|HIVHXB2CG_8069_8641_1_0_0_0_0_0_38/1
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32 TCCTG------------------------------------------------ACTCCAA
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33 ------------------TACTGTAGGAGA------TTCCAC------------------
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34 -----CAATATT---------------------TGAGGGCTTCCCACCCCCTG-------
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35 ------------------------------------------------------CGTCCC
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36 AGAAGTT-------------------------------
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37 >K03455|HIVHXB2CG_6040_6545_1_0_0_0_0_0_2/1
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38 ----------------------------------------------------ATCCTCAT
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39 -------------GCATCTGTTCTACCATG------TCATTTTT-----------CCACA
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40 TGTTAAAATTTTCTGT-----------------CACATTTAC---CAATACT--------
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41 ------------------------------------------------------------
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42 --------------------------------------
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43 >K03455|HIVHXB2CG_6480_6947_0_0_0_2_0_0_32/1
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44 ----------------------------------------------------TT------
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45 ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG
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46 TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA--------
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47 ------------------------------------------------------------
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48 ---------------TGAGGATATAA------------
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49 >K03455|HIVHXB2CG_6482_6962_0_0_0_1_0_0_35/1
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50 ------------------------------------------------------------
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51 ---------------GGTAAATGTGACAGA------AAATTTTA-----------ACATG
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52 TGGAAAAATGACATGG-----------------TAGA---AC---AGATGCA--------
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53 ------------------------------------------------------------
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54 ---------------TGAGGATATAAT-----C-----
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55 >K03455|HIVHXB2CG_5990_6505_1_0_0_0_0_0_3f/1
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56 ------------------------------------------------------------
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57 ------------------------------------------------------------
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58 --TTAAAATTTTCTGT-----------------CACATTTAC---CAATACTA-------
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59 ------------------------------------------------------CTTCTT
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60 GTGGGTTGGGGTCTGTGGGTACACAGGCATGTG-----
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61 >K03455|HIVHXB2CG_2700_3243_0_0_0_3_1_0_51/1
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62 ------------------------------------------------------------
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63 --------------CACCCATCCAAAGGAA------TTGAGGTT-----------CTTT-
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64 --CTGATGTTTTTTGT-----------------CTGGTGTGG---TAAGTCCC-------
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65 ------------------------------------------------------CACCTC
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66 GACAG---------------------------------
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67 >K03455|HIVHXB2CG_313_880_0_0_0_2_0_0_54/1
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68 CTTTA------------------------------------------TATTTTTTCTTAC
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69 -------------CCCCTGGCCTTAACCGA------ATTTTTTC-----------CCATC
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70 GATCTAATTCTCC--------------------CCCGCTTAA------------------
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71 ------------------------------------------------------------
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72 --------------------------------------
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73 >K03455|HIVHXB2CG_121_652_1_0_0_0_0_0_5f/1
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74 TCC--------------------------------------------CTGTTCG------
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75 ---------------GGCGCCACTGCTAGA------GATTTTCC-----------ACACT
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76 GACTAAAAGGGTCTGA-----------------GGGA---TCTCTAGTTACC--------
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77 ------------------------------------------------------------
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78 --------------------------------------
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79 >K03455|HIVHXB2CG_6045_6577_2_0_0_1_0_0_47/1
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80 ------------------------------------------AGTAAGTAGTACCTGTAA
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81 C--GCAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT
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82 AGCACTAATAAT------------------------------------------------
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83 ------------------------------------------------------------
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84 --------------------------------------
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85 >K03455|HIVHXB2CG_6065_6509_1_0_0_1_0_0_3a/1
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86 ------------------------------------------------------------
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87 ----CAACCTATACCAATAG-TAGCAATAG------TAGCATTA-----------GTAGT
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88 AGCAATAATAATAGCAATAG------------TTGAGTGGTC------------------
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89 ------------------------------------------------------------
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90 ---------------------------CA---------
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91 >K03455|HIVHXB2CG_4276_4897_1_0_0_1_0_0_3d/1
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92 ACAGTAA------------TTGGAG--------------AGCAATGGCTAGTGATTTTAA
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93 CCTGCCACCTGTAGTAGCAA-AAGAAATAG------TAGCCCG-----------------
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94 ------------------------------------------------------------
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95 ------------------------------------------------------------
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96 --------------------------------------
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97 >K03455|HIVHXB2CG_3823_4361_1_0_0_0_0_0_30/1
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98 ------------------------------------------------------------
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99 ---------TATGGTACCAGTTAGAGAAAG------AACCCCTA-----------GTAGG
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100 AGCAGAAACCTTCTATGTAG------------ATGGGGCAGC------------------
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101 ------------------------------------------------------------
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102 ---------------------------TAACAG-----
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103 >K03455|HIVHXB2CG_4457_4958_4_0_0_0_0_0_44/1
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104 ---------------------------------------------AGTTCATGTATCCAG
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105 T----------GGATATATAGAAGCAGAAG------TTATTCCAGCAGAAACAGGGGCTG
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106 AAACAGCATAT-------------------------------------------------
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107 ------------------------------------------------------------
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108 --------------------------------------
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109 >K03455|HIVHXB2CG_4420_4903_1_0_0_1_0_0_31/1
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110 ATTGTACA--------CATTTAGAATGAAAAGTTATCCTGGTAGCAGTTCATGTAGCCAG
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111 T----------GGATATATAGAAGCAGA--------------------------------
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112 ------------------------------------------------------------
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113 ------------------------------------------------------------
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114 --------------------------------------
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115 >K03455|HIVHXB2CG_4476_4938_5_0_0_3_0_0_2b/1
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116 ------------------------------------------------------------
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117 --------------TATAAAGACGCAGAAG------TTATTCCAGCATACACAGGGCAGG
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118 AAACAGCATATTTTCTTTT--------------CAAATTAG-------------------
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119 ------------------------------------------------------------
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120 -----------CAG------------------------
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121 >K03455|HIVHXB2CG_4053_4544_2_0_0_2_0_0_52/1
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122 ------------------------------------------------------------
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123 --------------TGCTAA-----------------------------------TTTTA
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124 AAAGACAATATTCTGTTTC--------------CTGCCCTGTTTCTGCTGGAA-------
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125 ------------------------------------------------------TAACTT
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126 CTGCTTCTATATAT------------------------
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127 >K03455|HIVHXB2CG_5585_6024_1_0_0_0_0_0_60/1
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128 ------------------------------------------------------------
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129 --------------GCCA---CAGAGGGAG------CCACACAA-----------TGAAT
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130 GGACACTATAGCTTTTAGAG--GAGCTTAAGAATGAAGCTGTTA----------------
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131 ------------------------------------------------------------
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132 ------------------GA------------------
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133 >K03455|HIVHXB2CG_3199_3700_2_0_0_1_0_0_4a/1
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134 ------------------------------------------------------------
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135 --------------CC--------------------CCATAT------------------
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136 ---TACTATGCTTTCTGTGGTTAATTTTTGCACTGCCTCTGTTAATTGTTTTA-------
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137 ------------------------------------------------------CATCAT
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138 TAG--------------TGT------------------
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139 >K03455|HIVHXB2CG_673_1207_2_0_0_2_0_0_16/1
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140 ------------------------------------------------------------
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141 ----------------------CAGAGGAG------GTCTCT------------------
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142 ----------------------CGACGCAGGACTCGGCTTGCTGAAGGGCGCA-------
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143 ------------------------------------------------------CGGCAA
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144 GAGGCGAGGGGCGG-CGACT------------------
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145 >K03455|HIVHXB2CG_667_1161_0_0_0_1_0_0_37/1
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146 ------------------------------------------------------------
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147 ----------------GGAAACCAGAGGAG------CTCTCT------------------
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148 ----------------------CGACGCAGGACTCGGCTTGCTGAAGCGCGCA-------
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149 ------------------------------------------------------CGGCAA
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150 GAGGCGAGGGGCG-------------------------
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151 >K03455|HIVHXB2CG_1938_2460_2_0_0_0_0_0_55/1
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152 ------------------------------------------------------------
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153 --------------TAGGAACCAAAGAAAG------ATAGTT------------------
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154 ----------------------AAGTGTTTCAATTGTGGCACAGAAGGGCACA-------
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155 ------------------------------------------------------CAGCCA
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156 GAAATTGCAGG---------------------------
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157 >K03455|HIVHXB2CG_2928_3444_5_0_0_1_0_0_5d/1
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158 CTTCTTC-----------------------------TGTTAGTGGTATTACTTCTGTTAG
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159 TGCTTTGGTACCTCTAAGGAGTTTACATAA------TTGCCTTAC---------------
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160 ------------------------------------------------------------
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161 ------------------------------------------------------------
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162 --------------------------------------
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163 >K03455|HIVHXB2CG_2832_3397_3_0_0_2_0_0_9/1
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164 ------------------------------------------------------------
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165 ----------------AGGATTTTACATAA------TTGCCTTACTTAAATCCCTGGGTA
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166 AATCTGACTTGCCCAATT---------------CAATTTCCCCA----------------
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167 -----------------------------------------------------------C
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168 TA------------------------------------
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169 >K03455|HIVHXB2CG_7233_7687_1_0_0_1_0_0_5a/1
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170 ------------------------------------------------------------
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171 -------------ACTTTATATTTATATAA------TTCACTTCTCCAATTGTCC-----
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172 -----------CTCATCT---------------CTCCTCCTCCAGGTCTGAAG-------
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173 -------------------------------------------------------ATCTC
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174 GG------------------------------------
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175 >K03455|HIVHXB2CG_7273_7731_1_0_0_5_0_0_6/1
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176 TCTTTGC-----------------------------CTTGGTTGGAGCAACTCCTAATGG
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177 TTGAATTTTTACTACTTTATATTTATATAA------TTCCCTTCT---------------
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178 ------------------------------------------------------------
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179 ------------------------------------------------------------
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180 --------------------------------------
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181 >K03455|HIVHXB2CG_8342_8779_1_0_0_2_0_0_40/1
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182 ------------------------------------------------------------
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183 -----------------------TCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG
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diff changeset
184 GCGCATAGCTCTACAAGC---------------TCCTTGTACTACTTCAATAA-------
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dave
parents:
diff changeset
185 ------------------------------------------------------------
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dave
parents:
diff changeset
186 --------------------------------------
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dave
parents:
diff changeset
187 >K03455|HIVHXB2CG_8349_8802_1_0_0_0_0_0_29/1
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dave
parents:
diff changeset
188 -----------------------------------------------------------A
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
189 CCCATCTTATAGCA-AAATCCTTTCCAAG-----CCCTGTCTTATTCTTCTAGGTATGTG
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dave
parents:
diff changeset
190 GCGAATAGCTCTACA---------------------------------------------
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dave
parents:
diff changeset
191 ------------------------------------------------------------
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dave
parents:
diff changeset
192 --------------------------------------
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dave
parents:
diff changeset
193 >K03455|HIVHXB2CG_1235_1682_3_0_0_0_0_0_56/1
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dave
parents:
diff changeset
194 ------------------------------------------------------------
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dave
parents:
diff changeset
195 ----------TCTACATAGTCTCTAAAGGGTTCCTTTGGTCCTTGTCTTATGTCCAGAAT
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dave
parents:
diff changeset
196 GCTGGTAGGGCT------------------------AT---------ACATTC-------
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dave
parents:
diff changeset
197 ------------------------------------------------------------
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dave
parents:
diff changeset
198 --------------------------------------
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dave
parents:
diff changeset
199 >K03455|HIVHXB2CG_5438_5909_1_0_0_4_0_0_7/1
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dave
parents:
diff changeset
200 ------------------------------------------------------------
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dave
parents:
diff changeset
201 ----------AATA-GCAATTTGTACAAG-------CAGTTTTAGGCTGACTTCGTGGAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
202 GCTTCCAGGGCT------------------------CTCGTCTA-GGATCAAC-------
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dave
parents:
diff changeset
203 ------------------------------------------------------------
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dave
parents:
diff changeset
204 --------------------------------------
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dave
parents:
diff changeset
205 >K03455|HIVHXB2CG_6619_7094_0_0_0_2_0_0_41/1
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dave
parents:
diff changeset
206 ------------------------------------------------------------
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dave
parents:
diff changeset
207 ----------TGTG-TTCAGCTGTACTAT-------TATGGTTATAGCATTTTCCGTGAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
208 ATTGACAGATCTAATTAC---------------TACCTCTTCT-----------------
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dave
parents:
diff changeset
209 ------------------------------------------------------------
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dave
parents:
diff changeset
210 --------------------------------------
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dave
parents:
diff changeset
211 >K03455|HIVHXB2CG_5574_6092_2_0_0_1_0_0_5/1
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dave
parents:
diff changeset
212 ------------------------------------------------------------
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dave
parents:
diff changeset
213 ----------------------------------------CTACTATTGCTACTAATGGT
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dave
parents:
diff changeset
214 ATAGGTTGCGTTACATGT---------------ACTACTTACTGCTTTGATAGA------
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parents:
diff changeset
215 -----------------------------------------------------GAAGCTT
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dave
parents:
diff changeset
216 GAT-----------------------------G-----
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dave
parents:
diff changeset
217 >K03455|HIVHXB2CG_7126_7621_1_1_1_3_1_0_26/1
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dave
parents:
diff changeset
218 --------------------------------------TCGGAGTCATTGTTGCTATTAC
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parents:
diff changeset
219 CACCATCTTTTGTTCATAGCAGCCCTGTAA------TATTTGATT---------------
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parents:
diff changeset
220 ------------------------------------------------------------
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dave
parents:
diff changeset
221 ------------------------------------------------------AACATC
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dave
parents:
diff changeset
222 TAA-----------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
223 >K03455|HIVHXB2CG_3596_4110_1_0_0_2_0_0_59/1
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parents:
diff changeset
224 ---------------------------------------------------TTTGATTG-
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parents:
diff changeset
225 -ACTAACTCTGATTCACTTTGATCTTGTAG------TGCTTGAAT---------------
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parents:
diff changeset
226 ------------------------------------------------------------
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parents:
diff changeset
227 ------------------------------------------------------GATTCC
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parents:
diff changeset
228 TAATGCATAT-----TGTGA----------GTC-----
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parents:
diff changeset
229 >K03455|HIVHXB2CG_1707_2205_1_0_0_3_0_0_48/1
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parents:
diff changeset
230 -----------------------CGAGCA-----AGCTTCACAGGAGTTAAA--------
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dave
parents:
diff changeset
231 -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG
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parents:
diff changeset
232 AACCCAGAT---------------------------------------------------
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dave
parents:
diff changeset
233 ------------------------------------------------------------
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dave
parents:
diff changeset
234 --------------------------------------
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dave
parents:
diff changeset
235 >K03455|HIVHXB2CG_1717_2240_0_0_0_2_0_0_4b/1
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dave
parents:
diff changeset
236 --------------------------------------TCACAGGAGGTAAA--------
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dave
parents:
diff changeset
237 -----------------------AAATTGGATGACAGAAACCTTGTTGGTCCAAAATGCG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
238 AACCCAGATTGTAAGA-----------------CTA------------------------
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dave
parents:
diff changeset
239 ------------------------------------------------------------
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dave
parents:
diff changeset
240 --------------------------------------
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dave
parents:
diff changeset
241 >K03455|HIVHXB2CG_1739_2301_2_0_0_2_0_0_33/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
242 ------------------------------------------------------------
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dave
parents:
diff changeset
243 -------------------------------TGACAGAAACCTAGTTGGTCCAAAATGCG
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dave
parents:
diff changeset
244 AACCCAGATTGTAAGA-----------------CAATTTTAAAAGCATTGGGACCAGC--
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dave
parents:
diff changeset
245 ------------------------------------------------------------
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dave
parents:
diff changeset
246 --------------------------------------
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dave
parents:
diff changeset
247 >K03455|HIVHXB2CG_1786_2269_1_0_0_1_0_0_39/1
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dave
parents:
diff changeset
248 ------------------------------------------------------------
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dave
parents:
diff changeset
249 ------------------------------------------------------------
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dave
parents:
diff changeset
250 -----------------------------------ATTTTAAAAGCATTGGGACCAGCGG
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parents:
diff changeset
251 CTACACTAGAAGAAATGATGACAGCATGTCAGGGAG-------------TAGGATGAC--
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dave
parents:
diff changeset
252 --------------------------------------
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dave
parents:
diff changeset
253 >K03455|HIVHXB2CG_6501_7035_0_0_0_0_0_0_b/1
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dave
parents:
diff changeset
254 ------------------------------------------------------------
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dave
parents:
diff changeset
255 ------------------------------------CTACCTCTTCTTCTGCTAGACTGC
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parents:
diff changeset
256 C-----------------------------------ATTTAACAGCAGTTGAGTTGATA-
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
257 ---------------------------------------------CTACTGGCCTAATTC
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parents:
diff changeset
258 CATGT--------------------------GT-----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
259 >K03455|HIVHXB2CG_6976_7493_0_0_0_0_0_0_12/1
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dave
parents:
diff changeset
260 ------------------------------------------------------------
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parents:
diff changeset
261 ----------------------TTAGGCCAGTAGTATCAACTCAACTGCTGTTAAATGGC
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parents:
diff changeset
262 A-----------------------------------GTCTAGCAGAAGAAGAGGTAGTA-
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parents:
diff changeset
263 ---------------------------------------------AT-------TAGATC
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dave
parents:
diff changeset
264 --------------------------------------
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dave
parents:
diff changeset
265 >K03455|HIVHXB2CG_5516_5958_3_0_0_2_0_0_20/1
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parents:
diff changeset
266 ---TAACG----------------------------------------------------
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parents:
diff changeset
267 -----------------CCACCTTTGCCTAGTGTTACGAAACTGCCAGAGGATAGATGGA
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parents:
diff changeset
268 AC---AA----------------------------GCCCCAGAAGACGAAGGG-------
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parents:
diff changeset
269 ------------------------------------------------------------
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dave
parents:
diff changeset
270 --------------------------------------
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dave
parents:
diff changeset
271 >K03455|HIVHXB2CG_8434_8946_0_0_0_1_0_0_21/1
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parents:
diff changeset
272 GTGGAGA-----------------------------------------------------
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parents:
diff changeset
273 ------------------------GAGAGACAGAGACAGATCCATTCGATTAGTGAACGG
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parents:
diff changeset
274 ATCC----------------------------------TTGGCACTTATCTGGGA-----
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parents:
diff changeset
275 ------------------------------------------------------CGATCT
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parents:
diff changeset
276 --------------------------------------
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parents:
diff changeset
277 >K03455|HIVHXB2CG_7957_8508_2_0_0_2_1_0_2c/1
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parents:
diff changeset
278 TCCGAAGA----------------------------------------------------
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parents:
diff changeset
279 -----------------TCGTCCCAGATAAGTGCCAAGGATCCGTTCACTACTCGAATGG
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parents:
diff changeset
280 ATCTGA------------------------------CTCTGTCTCT--------------
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parents:
diff changeset
281 ---------------------------------------------------------CTC
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parents:
diff changeset
282 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
283 >K03455|HIVHXB2CG_5251_5720_0_0_0_1_0_0_4/1
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dave
parents:
diff changeset
284 CCAAGTA-----------------------------------------------------
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dave
parents:
diff changeset
285 ---------------------TCCCCATAAGTTTCATAGATATGATGCCCTAAGCCATGG
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parents:
diff changeset
286 AGCCAAA----------------------------TCCTAGGAAAATGTCTA--------
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dave
parents:
diff changeset
287 ------------------------------------------------------------
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dave
parents:
diff changeset
288 --------------------------------------
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dave
parents:
diff changeset
289 >K03455|HIVHXB2CG_5199_5715_1_0_0_2_0_0_1a/1
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parents:
diff changeset
290 -----TA-----------------------------------------------------
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parents:
diff changeset
291 ---------------------TCCCCATAAGTTTCATCGATATGTTGCCCTAAGCGATGG
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parents:
diff changeset
292 AGCCAAA----------------------------TCCTAGGAAAATGTCTAAC------
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dave
parents:
diff changeset
293 ---------------------------------------------------------AGC
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dave
parents:
diff changeset
294 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
295 >K03455|HIVHXB2CG_1672_2143_3_0_0_2_0_0_1d/1
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dave
parents:
diff changeset
296 ----TGC-----------------------------------------------------
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dave
parents:
diff changeset
297 ---------------------TCTGAAGAAAATTCCCTG----GCCTTCCCTTGTAGTAA
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parents:
diff changeset
298 GGCCATA----------------------------TCTTCCCTAAAAAATTAGC------
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dave
parents:
diff changeset
299 ---------------------------------------------------------CTG
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dave
parents:
diff changeset
300 TCT-----------------------------------
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dave
parents:
diff changeset
301 >K03455|HIVHXB2CG_2020_2541_3_0_0_6_0_0_2f/1
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parents:
diff changeset
302 AAGTGCAA----------------------------------------------------
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dave
parents:
diff changeset
303 -----------------------------------GCAATCTGATTCACCCGATTTCTTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
304 C-----------------------------------AATTATGATGACAGGTGTAGGTC-
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dave
parents:
diff changeset
305 ---------------------------------------------CTACTAATACAGT--
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dave
parents:
diff changeset
306 --------------------------------------
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dave
parents:
diff changeset
307 >K03455|HIVHXB2CG_5150_5584_1_0_0_2_0_0_42/1
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dave
parents:
diff changeset
308 GAT---------------------------------------------------------
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dave
parents:
diff changeset
309 -----------------------------------------------GGTTTTATAGACA
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dave
parents:
diff changeset
310 TCA---------------------------------CTATGAAAGCCCTCATCCAAGAAA
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parents:
diff changeset
311 -----------------AAGTTCAGAAGTACACA------------------TCCCACTA
9a3a2e04f47a Uploaded
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parents:
diff changeset
312 GG------------------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
313 >K03455|HIVHXB2CG_3569_4048_0_0_0_4_0_0_3e/1
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parents:
diff changeset
314 AA----------------------------------------------------------
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parents:
diff changeset
315 --------------------------------------------------TTTATCAAGA
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dave
parents:
diff changeset
316 GCC---------------------------------ATTTAAAAATCTGAAAACAGGAAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
317 -----------------ATATGCAAGAATGAGGGG--------------TGCCCACACTA
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dave
parents:
diff changeset
318 AT------------------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
319 >K03455|HIVHXB2CG_6322_6838_1_0_0_0_1_0_63/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
320 AATTG----TGGGTCACAGTCT--------------ATTATGGGGTACC-----------
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dave
parents:
diff changeset
321 -------TGTGTGGC---------AGGAAGCAACCACCACTCTATT--------------
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dave
parents:
diff changeset
322 ------------------------------------------TTGTGCATC---------
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parents:
diff changeset
323 ------------------------------------------------------------
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dave
parents:
diff changeset
324 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
325 >K03455|HIVHXB2CG_5794_6187_2_0_0_0_0_0_5b/1
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dave
parents:
diff changeset
326 AGCAGA--ATAGGCGTTACTCG--------------ACAGAGGAGAGCA-----------
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dave
parents:
diff changeset
327 -------AGAAATGT---------AGCCAGTAGATCCTAGACTAT---------------
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parents:
diff changeset
328 -------------------------------------------AGCCCTGG---------
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parents:
diff changeset
329 ------------------------------------------------------------
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dave
parents:
diff changeset
330 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
331 >K03455|HIVHXB2CG_906_1404_1_0_0_3_0_0_45/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
332 -------------------------------------------GGAGCT-----------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
333 -------AGAACGAT---------TCGCAGTTAATCCTGGCGTGTTAGAAACATCAGAAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
334 GCT---------------------------------GTAGACAAATACTGGGA-------
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parents:
diff changeset
335 ------------------------------------------------------------
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dave
parents:
diff changeset
336 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
337 >K03455|HIVHXB2CG_1667_2209_4_0_0_2_0_0_2a/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
338 ----GAGGGGGAGTTGTTGTCT--------------GTACCCCAGACCT-----------
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dave
parents:
diff changeset
339 -------GAAGCTCTCTTCTTGTGGGGCTGTTGGCTCTGGTCTGCT--------------
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dave
parents:
diff changeset
340 ------------------------------------------------------------
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dave
parents:
diff changeset
341 ------------------------------------------------------------
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dave
parents:
diff changeset
342 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
343 >K03455|HIVHXB2CG_1644_2213_4_0_0_3_0_0_4f/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
344 TTCTGAGGGGGAGATGTTGTCT--------------CTAGCCCAGACCT-----------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
345 -------GAAGCTCTCTTCTGGTGGGGCAGTTGGCTCTGGTC------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
346 ------------------------------------------------------------
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dave
parents:
diff changeset
347 ------------------------------------------------------------
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dave
parents:
diff changeset
348 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
349 >K03455|HIVHXB2CG_5034_5548_1_0_0_4_0_0_13/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
350 A------------------------------------------GGGATTATG--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
351 ------GAAAACAGA---------TGGCAGGTGATGATTGTGTGGCAATTAGACAGGATG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
352 AGG---------------------------------ATTAGAACATGG------------
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dave
parents:
diff changeset
353 ------------------------------------------------------------
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dave
parents:
diff changeset
354 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
355 >K03455|HIVHXB2CG_9174_9651_1_0_0_0_0_0_4e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
356 ------------CGGGCACAC---------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
357 --------ACT--------ACTTGAAGCACTCAAGGCAAGCTTTATTGAGGCTTAAGCAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
358 TGG---------------------------------GTTCCCTAG--TTAGC--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
359 ------------------------------------------------------------
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dave
parents:
diff changeset
360 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
361 >K03455|HIVHXB2CG_9142_9638_2_0_0_2_0_0_3c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
362 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
363 --------------------CTTGAAGCACTCAAGGCAAGCTTTATTGCGGCTTAATCAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
364 TGG---------------------------------GTTCCCTAG--TTAGCCAGA----
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dave
parents:
diff changeset
365 -----------------------------------------------------GAGCTCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
366 CA------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
367 >K03455|HIVHXB2CG_8231_8877_0_0_0_3_0_0_25/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
368 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
369 ----------------TGCTGCTGGCTCAGCTCGTCT---CATTCATTCCCTTACAGTAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
370 GCC---------------------------------ATCCAATCACACTACATATT----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
371 --------------------------------------------------------GACC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
372 AC------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
373 >K03455|HIVHXB2CG_8446_8894_4_0_0_3_0_0_10/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
374 ------------GCTGCTCCC---------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
375 --------ACCCTATCTTGTGCTGGCTCAGCTCGTCT---CATTGTTTCCCTTACAGTAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
376 GCC---------------------------------ATCCAATCA---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
377 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
378 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
379 >K03455|HIVHXB2CG_5329_5821_2_0_0_2_0_0_43/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
380 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
381 -------------------TCCTCTGTCGAGTAACGC---CTATTCTGCTATGACGACAC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
382 CCA---------------------------------ATTCTGAAA--CTGGATAAA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
383 ---------------------------------------------------CAGCAGTTG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
384 TT------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
385 >K03455|HIVHXB2CG_7972_8486_1_0_0_0_0_0_e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
386 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
387 ---------------------------------------------------TGCCAAGGA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
388 TCC---------------------------------GTTCACTAA--TCGAATGGA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
389 ----------------------TCTGTCTCTGTCTCTCTCTCCACCTTCTTCTTCTATTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
390 CT------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
391 >K03455|HIVHXB2CG_2808_3255_0_0_0_1_0_0_22/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
392 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
393 -------------------TTCTGGGAAGTTCAAT----------------TAGGAATAC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
394 CAC---------------------------------ATCCCGCAGGGTTAAAAAAG----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
395 ----------------------AAAAAATCAGT------------------AACAGTACT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
396 GG------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
397 >K03455|HIVHXB2CG_3580_4035_1_0_0_0_0_0_3/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
398 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
399 -------------------CTATG------TTTAC----------------TTCTAATCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
400 CGA---------------------------------ATCCTGCAAAGCTAGATAAAT---
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
401 ------------------TGCTTGTAACTCAGTC-----------------TTCTGATTT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
402 GT------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
403 >K03455|HIVHXB2CG_9061_9383_1_0_0_4_0_0_3b/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
404 ------------C------ACTTATTAAA-----AGAAAAGGGGGGACTGGA--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
405 ------AGGGCTAATTCACTCCCAAAGAAGACAAG----ATATCCTTGATC---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
406 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
407 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
408 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
409 >K03455|HIVHXB2CG_9067_9580_2_0_0_1_0_0_4c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
410 ------------------------TTAAA-----AGAAAAGGGGGGACTGGA--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
411 ------AGGGCTAATTCACTGCCAAAGAAGACAAG----ATATCCTTGATCTGAGGA---
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
412 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
413 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
414 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
415 >K03455|HIVHXB2CG_7_537_2_0_0_1_0_0_1e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
416 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
417 --------GGCTAATTCACTCCCAACGAAGACAAG----ATATCCTTGATCTGTGGATGT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
418 ACC---------------------------------ACCCACAAG---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
419 ----------------------------------------------------GCTACTTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
420 CC------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
421 >K03455|HIVHXB2CG_4165_4569_2_0_0_3_0_0_8/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
422 --------------------------------------ACAACGGAATTGG---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
423 --------AGGAAATGAACCAGTAGATAAATTAGT----CAGTGCTGGAATCAGGAAAGT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
424 ACT---------------------------------ATTTTT------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
425 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
426 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
427 >K03455|HIVHXB2CG_3703_4231_2_0_0_1_0_0_62/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
428 ----------------------------------------AATAGTACTTT---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
429 --------CCTGATTCCAGCACTGACTAAATTATC----TACTTGTTCATTTCCTCCAAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
430 TCC---------------------------------TTTGTGTG----------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
431 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
432 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
433 >K03455|HIVHXB2CG_5977_6467_2_0_0_2_0_0_1/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
434 ----------------------------------GAAGAAGCGGAGACAGC---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
435 --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTCAATCAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
436 ATC---------------------------------AG----------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
437 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
438 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
439 >K03455|HIVHXB2CG_5968_6386_1_0_0_1_0_0_d/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
440 --------------------CTATGGCAG-----GAAGAAGCGGAGACAGC---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
441 --------GACGAAGAGCTCATCAGAACAGTCAGA----CTCATCAAGCTTCTGTA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
442 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
443 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
444 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
445 >K03455|HIVHXB2CG_5989_6545_2_0_0_1_0_0_19/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
446 ----------------------------------------------ACAGC---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
447 --------GACGAAGAGCTCATCAGAACAGACAGA----CTCATCAAGCTTCTCTATCAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
448 AGC---------------------------------AGTAAGTA----------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
449 -----------------------------------------------------TTACAT-
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
450 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
451 >K03455|HIVHXB2CG_3875_4298_2_0_0_1_0_0_24/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
452 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
453 --------------------------------------------------------AGCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
454 ATT---------------------------------GCTCTCCAA--TTACTGTGA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
455 ----------------------TATTTCTCATGTTCATCTTGGGCCTT----AACTATTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
456 CATCTA----------------------AAAAT-----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
457 >K03455|HIVHXB2CG_1312_1798_2_0_0_1_0_0_a/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
458 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
459 --------------------------------------------------TTATCAGAAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
460 G------------------------------AGCCACCCCACAAGATTTAAAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
461 ----------------------------------------------------ACCATGCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
462 ACACCC-------AGTGGGGGGACATCAAGCAGCCA--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
463 >K03455|HIVHXB2CG_1302_1790_0_0_0_1_0_0_1c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
464 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
465 ----------------------------------------GTTTTCAGCATTATCAGAAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
466 G------------------------------AGCCACCCCACAAGATTTAAAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
467 ----------------------------------------------------ACCATGCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
468 AAACAC-------AGTGGGGGGACAT------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
469 >K03455|HIVHXB2CG_1286_1769_0_0_0_4_0_0_0/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
470 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
471 ------------------------CAGAAGTGATACCCATGTTTTCAGCATTATCAGAAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
472 G------------------------------AGCCACCCCACAAGATTTAAAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
473 ----------------------------------------------------ACCATGCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
474 AAA-----------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
475 >K03455|HIVHXB2CG_6810_7300_0_0_0_0_0_0_2d/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
476 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
477 ------------------------TGT-------------AACACCTCAGTCATTA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
478 --CACAGG--------------CCTGTCCAAAGGTATCCTTTGAGCCAATTCC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
479 ----------------------------------------------------CATACATT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
480 ATTGTG--------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
481 >K03455|HIVHXB2CG_6323_6872_1_0_0_2_0_0_50/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
482 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
483 ------------------------ATG-------------TATG----------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
484 -----GGA--------------ATTGGCTGAAAGGATACCTTTGGACAGGCCT-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
485 ----------------------------------------------------GAGTAATG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
486 ACTGAGGTGTTACAA---------CTTGTC--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
487 >K03455|HIVHXB2CG_7609_8146_1_0_0_1_0_0_5e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
488 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
489 ------------------------AA--------------GCTTGTGTAATTGTTAATTT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
490 C---TCTG--------------TCCCACTCCATCCAGGTCGTGTGATTCCAAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
491 ----------------------------------------------------TCTGTTCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
492 AG--------------------------AG--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
493 >K03455|HIVHXB2CG_2685_3250_0_0_0_0_0_0_46/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
494 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
495 ------------------------AA--------------AATTTCAAA-----------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
496 -------------------------------AATTGGGCCTGAAAATCCATAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
497 ----------------------------------------------------AATACTCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
498 AGTATT-TGCCATAAAGAAAAAAGACAGTA--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
499 >K03455|HIVHXB2CG_217_724_2_1_0_2_0_0_36/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
500 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
501 ------------------------GC--------------CTGCATGGAATGGATGACCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
502 GGAGAGAG--------------AAGTGTTAGAGTGGAGGTTTGAGAGCCACCT-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
503 ----------------------------------------------------AGCAATTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
504 A-------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
505 >K03455|HIVHXB2CG_8325_8818_2_0_0_2_0_0_15/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
506 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
507 ------------------------GTA-------------CTTTCTATAGTGAATAGAGT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
508 TAGGCAGG--------------TATATTCACCATTATCGTTTGAGACCCACCT-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
509 ----------------------------------------------------CCCAACCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
510 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
511 >K03455|HIVHXB2CG_756_1235_2_0_0_1_0_0_34/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
512 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
513 ----------------------------------------------GGT-----------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
514 -------------------------------GATATGGGCTGATGTACCATTT-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
515 ----------------------------------------------------GCCCCTGG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
516 ATGTTC-TGCACTATAGGGTAATTTTGGCTGACCTGAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
517 >K03455|HIVHXB2CG_1835_2322_3_0_0_1_0_0_57/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
518 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
519 ------------------------ATAGAG----------CTTCCTTTAGTTGCCCCCCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
520 ATCTTTAT--------------TGTGACGAGGGGACGTTGCCAAAGAGTGACC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
521 ----------------------------------------------------TG------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
522 --------------------AGG---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
523 >K03455|HIVHXB2CG_2894_3537_2_0_0_0_0_0_18/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
524 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
525 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
526 TTTTTCAG--------------TTCGCTTAGATGAAGACTTCAGGCAGTATAC-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
527 ----------------------------------------------------TGCATTTA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
528 CCATACCTAGTATAAACAATGAG---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
529 >K03455|HIVHXB2CG_3672_4151_0_0_0_1_0_0_27/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
530 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
531 -----------------ATAACCACAGAA-----------------AGCATAGTAATATG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
532 G------------------------------GGAAAGACTCCTAAATTTAAACT------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
533 ---------------------------------------------------GCCCATACA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
534 AAA---------------GGAAACAT------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
535 >K03455|HIVHXB2CG_4939_5430_1_0_0_0_0_0_49/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
536 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
537 --------GACCAGCAAAGCACCTCTGGAA----------AGGTGAAGGGGCAGTAGTAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
538 TACAAGAT--------------AATAGTGACATAAAAGTAGT------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
539 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
540 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
541 >K03455|HIVHXB2CG_4957_5462_2_0_0_1_0_0_2e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
542 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
543 --------------------------GGAA----------AGGTGAAGGGGCAGTAGTAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
544 TACAAGAT--------------AATAGTGACATAACAGTAGTG-----------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
545 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
546 -------------------CGAAGAAGAAAAGCAAA--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
547 >K03455|HIVHXB2CG_3027_3517_0_0_0_6_0_0_53/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
548 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
549 -----------------------------------------TTTTATGGTTCATAATCCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
550 CTCCATGT--------------ACTGGTTCTTTTAGAATCTCTCATTTTTCT--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
551 ---------------------------------------------------GCCCGTTCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
552 AGCT----------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
553 >K03455|HIVHXB2CG_3441_3888_1_0_0_0_0_0_5c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
554 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
555 ------GAAGCAGAGCTAGAACTGGCAGAA----------AACAGAGAGATTCTAAAATA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
556 ACCAGTAC--------------ATGGAGTGTATTATGACC--------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
557 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
558 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
559 >K03455|HIVHXB2CG_5108_5621_3_0_0_2_0_0_23/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
560 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
561 ------------------------------------------------CTCTAGTGTCCA
9a3a2e04f47a Uploaded
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parents:
diff changeset
562 TTCATTGT--------------GTGGCTCCCTCTGTGGCCCTTGGTCTTCTTGG------
9a3a2e04f47a Uploaded
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parents:
diff changeset
563 ---------------------------------------------------GCTTGTTCC
9a3a2e04f47a Uploaded
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parents:
diff changeset
564 ATCTCTCCT-----------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
565 >K03455|HIVHXB2CG_3447_3973_0_0_0_1_0_0_1f/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
566 -----------------------------------------------------TGATTTG
9a3a2e04f47a Uploaded
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parents:
diff changeset
567 TTGTGTCAGTTAGGGTGACAACT------------------TTTTGTGTTCCTCTATTAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
568 TAACATAT--------------CCTGCTTTTCCTA-------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
569 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
570 --------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
571 >K03455|HIVHXB2CG_2276_2810_0_0_0_0_0_0_58/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
572 ------------------------------------------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
573 ---------------------------GAA----------GTCTTGAGTTCTCTTATTAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
574 --------------------------GTTCTCTGAAATCTACTAATTTTCTCCA------
9a3a2e04f47a Uploaded
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parents:
diff changeset
575 ---------------------------------------------------TTTAGTACT
9a3a2e04f47a Uploaded
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parents:
diff changeset
576 GTCTTTTTTC----------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
577 >K03455|HIVHXB2CG_2252_2786_0_0_0_0_0_0_c/1
9a3a2e04f47a Uploaded
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parents:
diff changeset
578 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
579 ------------------------------------------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
580 ---------------------------TTCTCTGAAATCTACTAATTTTCTCCA------
9a3a2e04f47a Uploaded
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parents:
diff changeset
581 ---------------------------------------------------TTTAGTACT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
582 GTCTTTTTTCTTT--ATGGCAAATACTGGAGTATTG--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
583 >K03455|HIVHXB2CG_4803_5329_1_0_0_2_0_0_1b/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
584 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
585 --------GGGGGGAACAGTGCAGGGGAAA----------GAATAGTAGACATAATAGCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
586 ACAGACAT--------------ACAAACTAAAGAATTACAA-------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
587 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
588 -----------------------------------A--
9a3a2e04f47a Uploaded
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parents:
diff changeset
589 >K03455|HIVHXB2CG_4642_5125_0_0_0_3_0_0_28/1
9a3a2e04f47a Uploaded
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parents:
diff changeset
590 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
591 ------------------------------------------------------------
9a3a2e04f47a Uploaded
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parents:
diff changeset
592 -----------------------------TAAGGTGTTTTACTAAACTTTTCCA------
9a3a2e04f47a Uploaded
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parents:
diff changeset
593 ---------------------------------------------------TGTTGTAAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
594 CCTCATCCTGTCTCCTTGCCACACAATCATCACCTG--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
595 >K03455|HIVHXB2CG_368_934_2_0_0_3_0_0_f/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
596 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
597 -----------------------------------------CAGGATTAACTGCGAATCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
598 T---TCTAG------------CTCCCTTGTTGCCCATACTATATGTTTTAATT-------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
599 ----------------------------------------------------TATATTTT
9a3a2e04f47a Uploaded
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parents:
diff changeset
600 TT--------------------------CT-------T