annotate test-data/blastp_four_human_vs_rhodopsin.xml @ 3:643338ac83c0 draft

Uploaded v0.0.12b, same code but moving folders around to match all my other tools and make future development simpler.
author peterjc
date Thu, 23 Aug 2012 09:00:40 -0400
parents d375502056f1
children 1f546099212f
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1 <?xml version="1.0"?>
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2 <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "NCBI_BlastOutput.dtd">
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3 <BlastOutput>
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4 <BlastOutput_program>blastp</BlastOutput_program>
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5 <BlastOutput_version>BLASTP 2.2.25+</BlastOutput_version>
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6 <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&amp;auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), &quot;Gapped BLAST and PSI-BLAST: a new generation of protein database search programs&quot;, Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference>
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7 <BlastOutput_db></BlastOutput_db>
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8 <BlastOutput_query-ID>sp|Q9BS26|ERP44_HUMAN</BlastOutput_query-ID>
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9 <BlastOutput_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</BlastOutput_query-def>
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10 <BlastOutput_query-len>406</BlastOutput_query-len>
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11 <BlastOutput_param>
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12 <Parameters>
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13 <Parameters_matrix>BLOSUM62</Parameters_matrix>
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14 <Parameters_expect>1e-08</Parameters_expect>
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15 <Parameters_gap-open>11</Parameters_gap-open>
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16 <Parameters_gap-extend>1</Parameters_gap-extend>
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17 <Parameters_filter>F</Parameters_filter>
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18 </Parameters>
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19 </BlastOutput_param>
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20 <BlastOutput_iterations>
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21 <Iteration>
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22 <Iteration_iter-num>1</Iteration_iter-num>
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23 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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24 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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25 <Iteration_query-len>406</Iteration_query-len>
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26 <Iteration_hits></Iteration_hits>
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27 <Iteration_stat>
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28 <Statistics>
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29 <Statistics_db-num>0</Statistics_db-num>
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30 <Statistics_db-len>0</Statistics_db-len>
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31 <Statistics_hsp-len>30</Statistics_hsp-len>
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32 <Statistics_eff-space>119568</Statistics_eff-space>
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33 <Statistics_kappa>0.041</Statistics_kappa>
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34 <Statistics_lambda>0.267</Statistics_lambda>
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35 <Statistics_entropy>0.14</Statistics_entropy>
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36 </Statistics>
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37 </Iteration_stat>
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38 <Iteration_message>No hits found</Iteration_message>
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39 </Iteration>
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40 <Iteration>
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41 <Iteration_iter-num>2</Iteration_iter-num>
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42 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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43 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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44 <Iteration_query-len>406</Iteration_query-len>
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45 <Iteration_hits></Iteration_hits>
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46 <Iteration_stat>
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47 <Statistics>
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48 <Statistics_db-num>0</Statistics_db-num>
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49 <Statistics_db-len>0</Statistics_db-len>
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50 <Statistics_hsp-len>30</Statistics_hsp-len>
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51 <Statistics_eff-space>119568</Statistics_eff-space>
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52 <Statistics_kappa>0.041</Statistics_kappa>
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53 <Statistics_lambda>0.267</Statistics_lambda>
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54 <Statistics_entropy>0.14</Statistics_entropy>
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55 </Statistics>
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56 </Iteration_stat>
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57 <Iteration_message>No hits found</Iteration_message>
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58 </Iteration>
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59 <Iteration>
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60 <Iteration_iter-num>3</Iteration_iter-num>
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61 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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62 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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63 <Iteration_query-len>406</Iteration_query-len>
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64 <Iteration_hits></Iteration_hits>
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65 <Iteration_stat>
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66 <Statistics>
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67 <Statistics_db-num>0</Statistics_db-num>
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68 <Statistics_db-len>0</Statistics_db-len>
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69 <Statistics_hsp-len>30</Statistics_hsp-len>
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70 <Statistics_eff-space>119568</Statistics_eff-space>
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71 <Statistics_kappa>0.041</Statistics_kappa>
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72 <Statistics_lambda>0.267</Statistics_lambda>
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73 <Statistics_entropy>0.14</Statistics_entropy>
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74 </Statistics>
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75 </Iteration_stat>
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76 <Iteration_message>No hits found</Iteration_message>
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77 </Iteration>
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78 <Iteration>
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79 <Iteration_iter-num>4</Iteration_iter-num>
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80 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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81 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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82 <Iteration_query-len>406</Iteration_query-len>
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83 <Iteration_hits></Iteration_hits>
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84 <Iteration_stat>
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85 <Statistics>
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86 <Statistics_db-num>0</Statistics_db-num>
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87 <Statistics_db-len>0</Statistics_db-len>
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88 <Statistics_hsp-len>30</Statistics_hsp-len>
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89 <Statistics_eff-space>119568</Statistics_eff-space>
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90 <Statistics_kappa>0.041</Statistics_kappa>
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91 <Statistics_lambda>0.267</Statistics_lambda>
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92 <Statistics_entropy>0.14</Statistics_entropy>
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93 </Statistics>
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94 </Iteration_stat>
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95 <Iteration_message>No hits found</Iteration_message>
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96 </Iteration>
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97 <Iteration>
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98 <Iteration_iter-num>5</Iteration_iter-num>
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99 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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100 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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101 <Iteration_query-len>406</Iteration_query-len>
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102 <Iteration_hits></Iteration_hits>
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103 <Iteration_stat>
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104 <Statistics>
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105 <Statistics_db-num>0</Statistics_db-num>
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106 <Statistics_db-len>0</Statistics_db-len>
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107 <Statistics_hsp-len>30</Statistics_hsp-len>
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108 <Statistics_eff-space>119568</Statistics_eff-space>
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109 <Statistics_kappa>0.041</Statistics_kappa>
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110 <Statistics_lambda>0.267</Statistics_lambda>
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111 <Statistics_entropy>0.14</Statistics_entropy>
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112 </Statistics>
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113 </Iteration_stat>
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114 <Iteration_message>No hits found</Iteration_message>
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115 </Iteration>
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116 <Iteration>
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117 <Iteration_iter-num>6</Iteration_iter-num>
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118 <Iteration_query-ID>sp|Q9BS26|ERP44_HUMAN</Iteration_query-ID>
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119 <Iteration_query-def>Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 PE=1 SV=1</Iteration_query-def>
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120 <Iteration_query-len>406</Iteration_query-len>
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121 <Iteration_hits></Iteration_hits>
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122 <Iteration_stat>
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123 <Statistics>
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124 <Statistics_db-num>0</Statistics_db-num>
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125 <Statistics_db-len>0</Statistics_db-len>
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126 <Statistics_hsp-len>30</Statistics_hsp-len>
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127 <Statistics_eff-space>119568</Statistics_eff-space>
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128 <Statistics_kappa>0.041</Statistics_kappa>
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129 <Statistics_lambda>0.267</Statistics_lambda>
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130 <Statistics_entropy>0.14</Statistics_entropy>
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131 </Statistics>
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132 </Iteration_stat>
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133 <Iteration_message>No hits found</Iteration_message>
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134 </Iteration>
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135 <Iteration>
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136 <Iteration_iter-num>7</Iteration_iter-num>
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137 <Iteration_query-ID>sp|Q9NSY1|BMP2K_HUMAN</Iteration_query-ID>
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138 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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139 <Iteration_query-len>1161</Iteration_query-len>
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140 <Iteration_hits></Iteration_hits>
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141 <Iteration_stat>
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142 <Statistics>
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143 <Statistics_db-num>0</Statistics_db-num>
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144 <Statistics_db-len>0</Statistics_db-len>
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145 <Statistics_hsp-len>38</Statistics_hsp-len>
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146 <Statistics_eff-space>348130</Statistics_eff-space>
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147 <Statistics_kappa>0.041</Statistics_kappa>
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148 <Statistics_lambda>0.267</Statistics_lambda>
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149 <Statistics_entropy>0.14</Statistics_entropy>
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150 </Statistics>
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151 </Iteration_stat>
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152 <Iteration_message>No hits found</Iteration_message>
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153 </Iteration>
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154 <Iteration>
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155 <Iteration_iter-num>8</Iteration_iter-num>
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156 <Iteration_query-ID>sp|Q9NSY1|BMP2K_HUMAN</Iteration_query-ID>
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157 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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158 <Iteration_query-len>1161</Iteration_query-len>
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159 <Iteration_hits></Iteration_hits>
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160 <Iteration_stat>
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161 <Statistics>
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162 <Statistics_db-num>0</Statistics_db-num>
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163 <Statistics_db-len>0</Statistics_db-len>
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164 <Statistics_hsp-len>38</Statistics_hsp-len>
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165 <Statistics_eff-space>348130</Statistics_eff-space>
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166 <Statistics_kappa>0.041</Statistics_kappa>
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167 <Statistics_lambda>0.267</Statistics_lambda>
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168 <Statistics_entropy>0.14</Statistics_entropy>
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169 </Statistics>
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170 </Iteration_stat>
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171 <Iteration_message>No hits found</Iteration_message>
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172 </Iteration>
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173 <Iteration>
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174 <Iteration_iter-num>9</Iteration_iter-num>
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175 <Iteration_query-ID>sp|Q9NSY1|BMP2K_HUMAN</Iteration_query-ID>
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176 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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177 <Iteration_query-len>1161</Iteration_query-len>
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178 <Iteration_hits></Iteration_hits>
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179 <Iteration_stat>
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180 <Statistics>
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181 <Statistics_db-num>0</Statistics_db-num>
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182 <Statistics_db-len>0</Statistics_db-len>
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183 <Statistics_hsp-len>38</Statistics_hsp-len>
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184 <Statistics_eff-space>348130</Statistics_eff-space>
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185 <Statistics_kappa>0.041</Statistics_kappa>
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186 <Statistics_lambda>0.267</Statistics_lambda>
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187 <Statistics_entropy>0.14</Statistics_entropy>
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188 </Statistics>
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189 </Iteration_stat>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
195 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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diff changeset
196 <Iteration_query-len>1161</Iteration_query-len>
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diff changeset
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diff changeset
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diff changeset
203 <Statistics_eff-space>348130</Statistics_eff-space>
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204 <Statistics_kappa>0.041</Statistics_kappa>
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diff changeset
205 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
206 <Statistics_entropy>0.14</Statistics_entropy>
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diff changeset
207 </Statistics>
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diff changeset
208 </Iteration_stat>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
213 <Iteration_query-ID>sp|Q9NSY1|BMP2K_HUMAN</Iteration_query-ID>
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diff changeset
214 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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diff changeset
215 <Iteration_query-len>1161</Iteration_query-len>
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diff changeset
216 <Iteration_hits></Iteration_hits>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
222 <Statistics_eff-space>348130</Statistics_eff-space>
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diff changeset
223 <Statistics_kappa>0.041</Statistics_kappa>
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diff changeset
224 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
225 <Statistics_entropy>0.14</Statistics_entropy>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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232 <Iteration_query-ID>sp|Q9NSY1|BMP2K_HUMAN</Iteration_query-ID>
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233 <Iteration_query-def>BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K PE=1 SV=2</Iteration_query-def>
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234 <Iteration_query-len>1161</Iteration_query-len>
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diff changeset
235 <Iteration_hits></Iteration_hits>
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diff changeset
236 <Iteration_stat>
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diff changeset
237 <Statistics>
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diff changeset
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diff changeset
241 <Statistics_eff-space>348130</Statistics_eff-space>
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diff changeset
242 <Statistics_kappa>0.041</Statistics_kappa>
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diff changeset
243 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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diff changeset
253 <Iteration_query-len>1382</Iteration_query-len>
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diff changeset
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diff changeset
255 <Iteration_stat>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
260 <Statistics_eff-space>414987</Statistics_eff-space>
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261 <Statistics_kappa>0.041</Statistics_kappa>
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diff changeset
262 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
263 <Statistics_entropy>0.14</Statistics_entropy>
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diff changeset
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diff changeset
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diff changeset
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diff changeset
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268 <Iteration>
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diff changeset
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diff changeset
272 <Iteration_query-len>1382</Iteration_query-len>
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diff changeset
273 <Iteration_hits></Iteration_hits>
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274 <Iteration_stat>
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diff changeset
275 <Statistics>
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diff changeset
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diff changeset
279 <Statistics_eff-space>414987</Statistics_eff-space>
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280 <Statistics_kappa>0.041</Statistics_kappa>
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parents:
diff changeset
281 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
282 <Statistics_entropy>0.14</Statistics_entropy>
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diff changeset
283 </Statistics>
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diff changeset
284 </Iteration_stat>
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parents:
diff changeset
285 <Iteration_message>No hits found</Iteration_message>
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diff changeset
286 </Iteration>
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parents:
diff changeset
287 <Iteration>
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parents:
diff changeset
288 <Iteration_iter-num>15</Iteration_iter-num>
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289 <Iteration_query-ID>sp|P06213|INSR_HUMAN</Iteration_query-ID>
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290 <Iteration_query-def>Insulin receptor OS=Homo sapiens GN=INSR PE=1 SV=4</Iteration_query-def>
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diff changeset
291 <Iteration_query-len>1382</Iteration_query-len>
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diff changeset
292 <Iteration_hits></Iteration_hits>
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diff changeset
293 <Iteration_stat>
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diff changeset
294 <Statistics>
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diff changeset
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diff changeset
298 <Statistics_eff-space>414987</Statistics_eff-space>
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diff changeset
299 <Statistics_kappa>0.041</Statistics_kappa>
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diff changeset
300 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
301 <Statistics_entropy>0.14</Statistics_entropy>
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diff changeset
302 </Statistics>
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diff changeset
303 </Iteration_stat>
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parents:
diff changeset
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305 </Iteration>
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diff changeset
306 <Iteration>
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diff changeset
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diff changeset
308 <Iteration_query-ID>sp|P06213|INSR_HUMAN</Iteration_query-ID>
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diff changeset
310 <Iteration_query-len>1382</Iteration_query-len>
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311 <Iteration_hits></Iteration_hits>
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312 <Iteration_stat>
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313 <Statistics>
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diff changeset
317 <Statistics_eff-space>414987</Statistics_eff-space>
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318 <Statistics_kappa>0.041</Statistics_kappa>
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319 <Statistics_lambda>0.267</Statistics_lambda>
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321 </Statistics>
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diff changeset
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parents:
diff changeset
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diff changeset
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diff changeset
325 <Iteration>
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diff changeset
326 <Iteration_iter-num>17</Iteration_iter-num>
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327 <Iteration_query-ID>sp|P06213|INSR_HUMAN</Iteration_query-ID>
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328 <Iteration_query-def>Insulin receptor OS=Homo sapiens GN=INSR PE=1 SV=4</Iteration_query-def>
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330 <Iteration_hits></Iteration_hits>
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331 <Iteration_stat>
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335 <Statistics_hsp-len>39</Statistics_hsp-len>
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diff changeset
336 <Statistics_eff-space>414987</Statistics_eff-space>
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diff changeset
337 <Statistics_kappa>0.041</Statistics_kappa>
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parents:
diff changeset
338 <Statistics_lambda>0.267</Statistics_lambda>
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diff changeset
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340 </Statistics>
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diff changeset
344 <Iteration>
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diff changeset
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346 <Iteration_query-ID>sp|P06213|INSR_HUMAN</Iteration_query-ID>
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