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48
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49 <div class=WordSection1>
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50
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51 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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52 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Info</span></b></p>
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53
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54 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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55 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The complete
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56 dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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57 Allows downloading of the complete parsed data set.</span></p>
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58
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59 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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60 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The filtered
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61 dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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62 Allows downloading of all parsed IMGT information of all transcripts that
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63 passed the chosen filter settings.</span></p>
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64
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65 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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66 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The alignment
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67 info on the unmatched sequences:</span></u><span lang=EN-GB style='font-size:
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68 12.0pt;font-family:"Times New Roman","serif"'> Provides information of the subclass
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69 alignment of all unmatched sequences. For each sequence the chunck hit
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70 percentage and the nt hit percentage is shown together with the best matched
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71 subclass.</span></p>
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72
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73 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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74 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>SHM Overview</span></b></p>
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75
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76 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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77 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The SHM Overview
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78 table as a dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;
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79 font-family:"Times New Roman","serif"'> Allows downloading of the SHM Overview
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80 table as a data set. </span></p>
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81
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82 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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83 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Motif data per
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84 sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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85 "Times New Roman","serif"'> Provides a file that contains information for each
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86 transcript on the number of mutations present in WA/TW and RGYW/WRCY motives.</span></p>
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87
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88 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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89 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Mutation data
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90 per sequence ID: </span></u><span lang=EN-GB style='font-size:12.0pt;
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91 font-family:"Times New Roman","serif"'>Provides a file containing information
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92 on the number of sequences bases, the number and location of mutations and the
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93 type of mutations found in each transcript. </span></p>
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94
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95 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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96 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Base count for
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97 every sequence:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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98 "Times New Roman","serif"'> links to a page showing for each transcript the
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99 sequence of the analysed region (as dependent on the sequence starts at filter),
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100 the assigned subclass and the number of sequenced A,C,G and T’s.</span></p>
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101
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102 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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103 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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104 generate the percentage of mutations in AID and pol eta motives plot:</span></u><span
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105 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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106 Provides a file containing the values used to generate the percentage of
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107 mutations in AID and pol eta motives plot in the SHM overview tab.</span></p>
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108
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109 <p class=MsoNormalCxSpFirst style='text-align:justify'><u><span lang=EN-GB
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110 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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111 data used to generate the relative mutation patterns plot:</span></u><span
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112 lang=EN-GB style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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113 Provides a download with the data used to generate the relative mutation
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114 patterns plot in the SHM overview tab.</span></p>
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115
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116 <p class=MsoNormalCxSpLast style='text-align:justify'><u><span lang=EN-GB
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117 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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118 data used to generate the absolute mutation patterns plot:</span></u><span
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119 lang=EN-GB style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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120 Provides a download with the data used to generate the absolute mutation
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121 patterns plot in the SHM overview tab. </span></p>
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122
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123 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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124 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>SHM Frequency</span></b></p>
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125
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126 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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127 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data
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128 generate the frequency scatter plot:</span></u><span lang=EN-GB
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129 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Allows
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130 downloading the data used to generate the frequency scatter plot in the SHM
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131 frequency tab. </span></p>
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132
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133 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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134 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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135 generate the frequency by class plot:</span></u><span lang=EN-GB
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136 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Allows
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137 downloading the data used to generate frequency by class plot included in the
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138 SHM frequency tab. </span></p>
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139
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140 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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141 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for
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142 frequency by subclass:</span></u><span lang=EN-GB style='font-size:12.0pt;
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143 font-family:"Times New Roman","serif"'> Provides information of the number and
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144 percentage of sequences that have 0%, 0-2%, 2-5%, 5-10%, 10-15%, 15-20%,
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145 >20% SHM. Information is provided for each subclass.</span></p>
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146
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147 <p class=MsoNoSpacing style='text-align:justify'><span lang=EN-GB
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148 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> </span></p>
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149
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150 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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151 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Transition
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152 Tables</span></b></p>
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153
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154 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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155 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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156 'all' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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157 font-family:"Times New Roman","serif"'> Contains the information used to
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158 generate the transition table for all sequences.</span></p>
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159
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160 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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161 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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162 'IGA' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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163 font-family:"Times New Roman","serif"'> Contains the information used to
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164 generate the transition table for all IGA sequences.</span></p>
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165
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166 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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167 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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168 'IGA1' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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169 font-family:"Times New Roman","serif"'> Contains the information used to
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170 generate the transition table for all IGA1 sequences.</span></p>
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171
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172 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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173 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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174 'IGA2' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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175 font-family:"Times New Roman","serif"'> Contains the information used to
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176 generate the transition table for all IGA2 sequences.</span></p>
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177
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178 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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179 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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180 'IGG' transition plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
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181 font-family:"Times New Roman","serif"'> Contains the information used to
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182 generate the transition table for all IGG sequences.</span></p>
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183
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184 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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185 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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186 'IGG1' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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187 font-family:"Times New Roman","serif"'> Contains the information used to
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188 generate the transition table for all IGG1 sequences.</span></p>
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189
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190 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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191 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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192 'IGG2' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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193 font-family:"Times New Roman","serif"'> Contains the information used to
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194 generate the transition table for all IGG2 sequences.</span></p>
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195
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196 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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197 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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198 'IGG3' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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199 font-family:"Times New Roman","serif"'> Contains the information used to
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200 generate the transition table for all IGG3 sequences.</span></p>
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201
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202 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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203 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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204 'IGG4' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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205 font-family:"Times New Roman","serif"'> Contains the information used to
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206 generate the transition table for all IGG4 sequences.</span></p>
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207
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208 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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209 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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210 'IGM' transition plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
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211 font-family:"Times New Roman","serif"'> Contains the information used to
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212 generate the transition table for all IGM sequences.</span></p>
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213
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214 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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215 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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216 'IGE' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
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217 font-family:"Times New Roman","serif"'> Contains the
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218 information used to generate the transition table for all IGE sequences.</span></p>
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219
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220 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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221 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Antigen
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222 selection</span></b></p>
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223
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224 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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225 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>AA mutation data
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226 per sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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227 "Times New Roman","serif"'> Provides for each transcript information on whether
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228 there is replacement mutation at each amino acid location (as defined by IMGT).
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229 For all amino acids outside of the analysed region the value 0 is given.</span></p>
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230
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231 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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232 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Presence of AA
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233 per sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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234 "Times New Roman","serif"'> Provides for each transcript information on which
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235 amino acid location (as defined by IMGT) is present. </span><span lang=NL
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236 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>0 is absent, 1
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237 is present. </span></p>
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238
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239 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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240 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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241 generate the aa mutation frequency plot:</span></u><span lang=EN-GB
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242 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
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243 data used to generate the aa mutation frequency plot for all sequences in the
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244 antigen selection tab.</span></p>
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245
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246 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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247 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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248 generate the aa mutation frequency plot for IGA:</span></u><span lang=EN-GB
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249 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
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250 data used to generate the aa mutation frequency plot for all IGA sequences in
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251 the antigen selection tab.</span></p>
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252
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253 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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254 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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255 generate the aa mutation frequency plot for IGG:</span></u><span lang=EN-GB
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256 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
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257 data used to generate the aa mutation frequency plot for all IGG sequences in
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258 the antigen selection tab.</span></p>
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259
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260 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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261 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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262 generate the aa mutation frequency plot for IGM:</span></u><span lang=EN-GB
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263 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
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264 data used to generate the aa mutation frequency plot for all IGM sequences in
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265 the antigen selection tab.</span></p>
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266
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267 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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268 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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269 generate the aa mutation frequency plot for IGE:</span></u><span lang=EN-GB
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270 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
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271 data used to generate the aa mutation frequency plot for all IGE sequences in
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272 the antigen selection tab.</span></p>
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273
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274 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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275 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline PDF (</span></u><span
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276 lang=EN-GB><a href="http://selection.med.yale.edu/baseline/"><span
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277 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>http://selection.med.yale.edu/baseline/</span></a></span><u><span
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278 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>):</span></u><span
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279 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'> PDF
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280 containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
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281 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all
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282 sequences.</span></p>
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283
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284 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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285 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline data:</span></u><span
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286 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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287 Table output of the BASELINe analysis. Calculation of antigen selection as
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288 performed by BASELINe are shown for each individual sequence and the sum of all
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289 sequences.</span></p>
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290
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291 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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292 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGA
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293 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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294 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
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295 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all
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296 sequences.</span></p>
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297
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298 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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299 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGA
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300 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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301 Table output of the BASELINe analysis. Calculation of antigen selection as
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302 performed by BASELINe are shown for each individual IGA sequence and the sum of
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303 all IGA sequences.</span></p>
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304
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305 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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306 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGG
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307 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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308 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
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309 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGG
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310 sequences.</span></p>
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311
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312 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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313 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGG
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314 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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315 Table output of the BASELINe analysis. Calculation of antigen selection as
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316 performed by BASELINe are shown for each individual IGG sequence and the sum of
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317 all IGG sequences. </span></p>
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318
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319 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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320 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGM PDF:</span></u><span
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321 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'> PDF
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322 containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
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323 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGM
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324 sequences.</span></p>
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325
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326 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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327 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGM
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328 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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329 Table output of the BASELINe analysis. Calculation of antigen selection as
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330 performed by BASELINe are shown for each individual IGM sequence and the sum of
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331 all IGM sequences.</span></p>
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332
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333 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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334 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGE
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335 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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336 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
|
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337 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGE
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338 sequences.</span><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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339 </span></p>
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340
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341 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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342 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGE
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343 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
|
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344 Table output of the BASELINe analysis. Calculation of antigen selection as
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345 performed by BASELINe are shown for each individual IGE sequence and the sum of
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346 all IGE sequences.</span></p>
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347
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348 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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349 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>CSR</span></b></p>
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350
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351 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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352 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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353 </span></u><u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGA
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354 subclass distribution plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
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355 font-family:"Times New Roman","serif"'> </span><span lang=EN-GB
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356 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Data used for
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357 the generation of the </span><span lang=EN-GB style='font-size:12.0pt;
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358 font-family:"Times New Roman","serif"'>IGA subclass distribution plot provided
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359 in the CSR tab. </span></p>
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360
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361 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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362 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
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363 </span></u><u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGA
|
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364 subclass distribution plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
|
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365 font-family:"Times New Roman","serif"'> Data used for the generation of the </span><span
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366 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGG
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367 subclass distribution plot provided in the CSR tab. </span></p>
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368
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369 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=NL
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370 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Clonal relation</span></b></p>
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371
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372 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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373 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Sequence overlap
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374 between subclasses:</span></u><span lang=EN-GB style='font-size:12.0pt;
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375 font-family:"Times New Roman","serif"'> Link to the overlap table as provided
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376 under the clonality overlap tab. </span></p>
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377
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378 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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379 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
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380 file with defined clones and subclass annotation:</span></u><span
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381 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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382 Downloads a table with the calculation of clonal relation between all
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383 sequences. For each individual transcript the results of the clonal assignment
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384 as provided by Change-O are provided. Sequences with the same number in the CLONE
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385 column are considered clonally related. </span></p>
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386
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387 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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388 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
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389 defined clones summary file:</span></u><span lang=EN-GB style='font-size:12.0pt;
|
|
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390 font-family:"Times New Roman","serif"'> Gives a summary of the total number of
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391 clones in all sequences and their clone size. </span></p>
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392
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393 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
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394 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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395 file with defined clones of IGA:</span></u><span lang=EN-GB style='font-size:
|
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396 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
|
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397 calculation of clonal relation between all IGA sequences. For each individual
|
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398 transcript the results of the clonal assignment as provided by Change-O are
|
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399 provided. Sequences with the same number in the CLONE column are considered
|
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400 clonally related. </span></p>
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401
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402 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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403 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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404 defined clones summary file of IGA:</span></u><span lang=EN-GB
|
|
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405 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
|
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406 of the total number of clones in all IGA sequences and their clone size.</span></p>
|
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407
|
|
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408 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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409 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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410 file with defined clones of IGG:</span></u><span lang=EN-GB style='font-size:
|
|
|
411 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
|
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412 calculation of clonal relation between all IGG sequences. For each individual
|
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413 transcript the results of the clonal assignment as provided by Change-O are
|
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414 provided. Sequences with the same number in the CLONE column are considered
|
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415 clonally related. </span></p>
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416
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417 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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418 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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419 defined clones summary file of IGG:</span></u><span lang=EN-GB
|
|
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420 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
|
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421 of the total number of clones in all IGG sequences and their clone size.</span></p>
|
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422
|
|
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423 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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424 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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425 file with defined clones of IGM:</span></u><span lang=EN-GB style='font-size:
|
|
|
426 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table
|
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427 with the calculation of clonal relation between all IGM sequences. For each
|
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428 individual transcript the results of the clonal assignment as provided by
|
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429 Change-O are provided. Sequences with the same number in the CLONE column are
|
|
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430 considered clonally related. </span></p>
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431
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432 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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433 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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434 defined clones summary file of IGM:</span></u><span lang=EN-GB
|
|
|
435 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
|
|
|
436 of the total number of clones in all IGM sequences and their clone size.</span></p>
|
|
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437
|
|
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438 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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439 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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440 file with defined clones of IGE:</span></u><span lang=EN-GB style='font-size:
|
|
|
441 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
|
|
|
442 calculation of clonal relation between all IGE sequences. For each individual
|
|
|
443 transcript the results of the clonal assignment as provided by Change-O are
|
|
|
444 provided. Sequences with the same number in the CLONE column are considered
|
|
|
445 clonally related. </span></p>
|
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446
|
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447 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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448 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
|
|
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449 defined clones summary file of IGE:</span></u><span lang=EN-GB
|
|
|
450 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
|
|
|
451 of the total number of clones in all IGE sequences and their clone size.</span></p>
|
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452
|
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453 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
|
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454 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Filtered IMGT
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455 output files</span></b></p>
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456
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457 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
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458 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
|
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459 with just the matched and filtered sequences:</span></u><span lang=EN-GB
|
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460 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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461 .txz file with the same format as downloaded IMGT files that contains all
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462 sequences that have passed the chosen filter settings.</span></p>
|
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463
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464 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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465 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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466 with just the matched and filtered IGA sequences:</span></u><span lang=EN-GB
|
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467 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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468 .txz file with the same format as downloaded IMGT files that contains all IGA
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469 sequences that have passed the chosen filter settings.</span></p>
|
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470
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|
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471 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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472 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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473 with just the matched and filtered IGA1 sequences:</span></u><span lang=EN-GB
|
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474 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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475 .txz file with the same format as downloaded IMGT files that contains all IGA1
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476 sequences that have passed the chosen filter settings.</span></p>
|
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477
|
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478 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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479 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
|
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480 with just the matched and filtered IGA2 sequences:</span></u><span lang=EN-GB
|
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481 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
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482 file with the same format as downloaded IMGT files that contains all IGA2
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483 sequences that have passed the chosen filter settings.</span></p>
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484
|
|
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485 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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486 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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487 with just the matched and filtered IGG sequences:</span></u><span lang=EN-GB
|
|
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488 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
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489 file with the same format as downloaded IMGT files that contains all IGG
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490 sequences that have passed the chosen filter settings.</span></p>
|
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491
|
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492 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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493 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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494 with just the matched and filtered IGG1 sequences:</span></u><span lang=EN-GB
|
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495 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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496 .txz file with the same format as downloaded IMGT files that contains all IGG1
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497 sequences that have passed the chosen filter settings.</span></p>
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498
|
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499 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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500 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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501 with just the matched and filtered IGG2 sequences:</span></u><span lang=EN-GB
|
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502 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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503 .txz file with the same format as downloaded IMGT files that contains all IGG2
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504 sequences that have passed the chosen filter settings.</span></p>
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505
|
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506 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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507 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
|
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508 with just the matched and filtered IGG3 sequences:</span></u><span lang=EN-GB
|
|
|
509 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
|
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510 file with the same format as downloaded IMGT files that contains all IGG3
|
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511 sequences that have passed the chosen filter settings.</span></p>
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512
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513 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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514 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
|
|
515 with just the matched and filtered IGG4 sequences:</span></u><span lang=EN-GB
|
|
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516 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
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517 .txz file with the same format as downloaded IMGT files that contains all IGG4
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518 sequences that have passed the chosen filter settings.</span></p>
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519
|
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520 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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521 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
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522 with just the matched and filtered IGM sequences:</span></u><span lang=EN-GB
|
|
|
523 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
|
|
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524 file with the same format as downloaded IMGT files that contains all IGM
|
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525 sequences that have passed the chosen filter settings.</span></p>
|
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526
|
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527 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
|
|
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528 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
|
|
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529 with just the matched and filtered IGE sequences:</span></u><span lang=EN-GB
|
|
|
530 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
|
|
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531 .txz file with the same format as downloaded IMGT files that contains all IGE
|
|
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532 sequences that have passed the chosen filter settings.</span></p>
|
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533
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534 </div>
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535
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536 </body>
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537
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538 </html>
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