Mercurial > repos > jankanis > blast2html

annotate visualise.html.jinja @ 10:2fbdf2eb27b4

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All data is displayed now, still some formatting to do
author Jan Kanis <jan.code@jankanis.nl>
date Fri, 09 May 2014 18:16:48 +0200
parents bbdc8fb0de2b
children 7660519f2dc9
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1 <!DOCTYPE html>
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2 <html>
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3 <head>
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4 <meta charset="UTF-8">
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5
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6 <title>Blast output</title>
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7
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8 <style>
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9 body {
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10 color: #33333;
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11 font-family: Verdana,Arial,Sans-Serif;
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12 }
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13
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14 #content {
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15 margin: 0 2em;
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16 padding: 0.5em;
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17 border: 1px solid #888888;
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18 background-color: #d3dff5;
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19 }
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20
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21 h1, h2, h3, h4, h5, h6 {
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22 color: #2A6979;
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23 font-family: arial,verdana,sans-serif;
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24 letter-spacing: -1px;
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25 margin: 1.2em 0 0.3em;
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26 }
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28 h1 {
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29 border-bottom: 1px solid #CCCCCC;
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30 font-size: 150%;
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31 padding-bottom: 0.1em;
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32 }
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33
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34 h2 {
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35 font-size: 120%;
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36 font-weight: bold;
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37 }
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38
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39 h4.blackHeader {
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40 color: black;
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41 letter-spacing: 0;
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42 font-style: bold;
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43 }
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44
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45 .headerdata {
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46 font-size: 90%;
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47 }
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48 .headerdata .param {
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49 font-weight: bold;
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50 text-align: right;
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51 padding: 0 1em;
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52 }
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53
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54 .grey {
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55 background-color: #eeeeee;
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56 border: 1px solid #cccccc;
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57 padding: 1em;
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58 }
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59
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60 .white {
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61 background-color: white;
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62 border: 1px solid #cccccc;
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63 padding: 1.5em 2%;
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64 }
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65
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66 .graphicrow {
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67 clear: left;
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68 width: 100%;
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69 }
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70
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71 .graphicitem {
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72 float: left;
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73 }
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74
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75 .graphic {
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76 background-color: white;
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77 border: 2px solid black;
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78 padding: .5em;
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79 align: center;
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80 margin: auto;
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81 }
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82
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83 #graphics .grey {
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84 text-align: center;
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85 }
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86
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87 .centered, #defline, div.legend, div.tablewrapper {
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88 align: center;
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89 margin-left: auto;
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90 margin-right: auto;
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91 }
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92
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93 #defline {
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94 background-color: white;
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95 border: 1px solid black;
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96 margin: .5em auto;
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97 padding-left: .2em;
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98 padding-right: .2em;
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99 max-width: 50em;
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100 text-align: left;
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101 height: 2.8em;
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102 overflow-y: hidden;
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103 }
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104
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105 div.legend {
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106 max-width: 40em;
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107 }
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108 div.legend div {
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109 width: 100%;
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110 color: white;
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111 font-weight: bold;
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112 border-spacing: 0;
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113 }
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114 div.legend div .graphicitem {
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115 width: 20%;
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116 padding: 0;
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117 margin: 0;
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118 border: none;
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119 }
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120
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121 div.tablewrapper {
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122 width: 50%;
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123 min-width: 60em;
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124 }
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125
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126 /* For small widths we give the graphic 100% */
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127 @media (max-width: 70em) {
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128 div.tablewrapper {
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129 width: 100%;
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130 min-width: 0px;
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131 }
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132 }
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133
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134 .scale {
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135 width: 100%;
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136 margin: .5em 0;
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137 font-weight: bold;
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138 }
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139 .scale div {
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140 color: red;
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141 text-align: left;
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142 }
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143 .scale .graphicrow {
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144 margin: .5em 0 .5em 0;
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145 color: white;
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146 }
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147 .scale .graphicitem div {
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148 margin: 0 1px;
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149 padding: 0 2px;
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150 text-align: right;
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151 background-color: red;
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152 color: white;
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153 }
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154 .scale .graphicitem:first-child div {
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155 margin-left: 0px;
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156 }
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157 .scale .graphicitem:last-child div {
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158 margin-right: 0px;
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159 }
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160
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161 a.matchresult {
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162 display: block;
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163 margin: 0;
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164 padding: 0;
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165 }
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166 div.matchrow {
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167 margin-top: 4px;
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168 }
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169 div.matchrow, div.matchitem {
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170 height: 4px;
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171 }
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172
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173 div#descriptions {
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174 }
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175
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176 table.descriptiontable {
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177 font-size: 85%;
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178 border: 1px solid #97b0c8;
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179 border-spacing: 0;
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180 color: #222222;
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181 line-height: 1.3em;
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182 background-color: white;
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183 }
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184 table.descriptiontable col:first-child {
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185 width: 100%;
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186 }
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187 table.descriptiontable tr:hover {
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188 background-color: #D5DEE3;
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189 }
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190 table.descriptiontable th {
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191 background-color: #F0F0F0;
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192 background: linear-gradient(#FFFFFF, #F0F0F0);
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193 border-bottom: 1px solid #D4DFE9;
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194 border-right: 1px solid #CFCFCF;
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195 border-left: 0px solid black;
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196 border-top: 0px solid black;
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197 }
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198 table.descriptiontable td {
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199 overflow: hidden;
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200 text-align: center;
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201 padding: .4em .8em;
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202 }
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203 table.descriptiontable td div {
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204 width: 1em;
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205 overflow: visible;
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206 white-space: nowrap;
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207 text-align: left;
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208 }
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209
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210 </style>
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211
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212 <script type="text/javascript">
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213 function toggle_visibility(id) {
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214 var e = document.getElementById(id);
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215 if(e.style.display == 'none')
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216 e.style.display = 'block';
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217 else
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218 e.style.display = 'none';
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219 }
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220 </script>
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221
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222 </head>
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223
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224 <body>
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225 <div id=content>
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226 <h1>Nucleotide Sequence ({{length}} letters)</h1>
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227
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228 <div id=header>
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229
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230 <table class=headerdata>
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231 {% for param, value in params %}
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232 <tr><td class=param>{{param}}</td><td>{{value}}</td></tr>
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233 {% endfor %}
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234 </table>
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235
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236 </div>
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237
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238 <div id=graphics>
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239 <h2>Graphic Summary</h2>
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240
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241 <div class=grey>
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242 <h3 class=centered>Distribution of {{hits|length}} Blast Hits on the Query Sequence</h3>
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243
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244 <div id=defline>Mouse-over to show defline and scores, click to show alignments</div>
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245
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246 <div class=graphic>
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247 <h4 class=blackHeader>Color key for alignment scores</h4>
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248 <div class=legend><div class=graphicrow>
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249 <div class=graphicitem style="background-color: {{colors[0]}}">&lt;40</div>
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250 <div class=graphicitem style="background-color: {{colors[1]}}">40-50</div>
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251 <div class=graphicitem style="background-color: {{colors[2]}}">50-80</div>
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252 <div class=graphicitem style="background-color: {{colors[3]}}">80-200</div>
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253 <div class=graphicitem style="background-color: {{colors[4]}}">200&le;</div>
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254 </div></div>
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255 <div style="clear: left"></div>
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256
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257 <div class=tablewrapper>
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258
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259 <div class=scale>
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260 <div>query:</div>
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261 <div class=graphicrow>
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262 {% for s in queryscale %}
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263 <div class=graphicitem
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264 style="width: {{s.width|safe}}%">
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265 <div>{{s.label|safe}}</div>
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266 </div>
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267 {% endfor %}
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268 </div>
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269 <div style="clear: left"></div>
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270 </div>
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271
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272 {% for line in match_colors %}
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273 <a class=matchresult
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274 href="{{line.link}}"
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275 onmouseover='document.getElementById("defline").innerHTML="{{line.defline}}"'
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276 onmouseout='document.getElementById("defline").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
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277 title="{{line.defline}}">
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278 <div class="matchrow graphicrow">
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279 {% for match in line.colors %}
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280 <div class="matchitem graphicitem"
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281 style="background-color: {{match[1]}}; width: {{match[0]}}%"></div>
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282 {% endfor %}
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283 </div>
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284 </a>
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285
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286 {% endfor %}
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287 </div>
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288 </div>
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289 </div>
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290 </div>
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291
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292
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293
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294 <div id=descriptions>
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295 <h2>Descriptions</h2>
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296
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297 <div class=grey><div class=white>
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298 <h4 class=blackHeader>Sequences producing significant alignments:</h4>
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299
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300 <table class=descriptiontable>
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301 <col/><col/><col/><col/><col/><col/><col/>
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302 <tr>
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303 <th>Description</th>
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304 <th>Max score</th>
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305 <th>Total score</th>
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306 <th>Query cover</th>
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307 <th>E value</th>
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308 <th>Ident</th>
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309 <th>Accession</th>
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310 </tr>
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311 {% for hit in hit_info %}
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312 <tr>
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313 <td><div><a href="#hit{{hit.link_id}}"
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314 title="{{hit.title}}"
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315 name=description{{hit.link_id}}>
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316 {{hit.title}}
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317 </a></div></td>
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318 <td>{{hit.maxscore}}</td>
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319 <td>{{hit.totalscore}}</td>
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320 <td>{{hit.cover}}</td>
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321 <td>{{hit.e_value}}</td>
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322 <td>{{hit.ident}}</td>
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323 <td>{{hit.accession}}</td>
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324 </tr>
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325 {% endfor %}
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326 </table>
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327
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328 </div></div>
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329 </div>
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330
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331
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332
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333 <div id=alignments>
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334 <h2>Alignments</h2>
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335
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336 <div class=grey><div class=white>
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337 {% for hit in hits %}
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338 <div class=alignment id=hit{{hit.Hit_num}}>
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339
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340 <div class=linkheader>
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341 <a href="#description{{hit.Hit_num}}">Descriptions</a>
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342 </div>
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343
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344 <div class=title>
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345 <p class=hittitle>{{hit|firsttitle}}</p>
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346 <p class=titleinfo>
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347 <span class=b>Sequence ID:</span> {{hit|seqid}}
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348 <span class=b>Length:</span> {{hit.Hit_len}}
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349 <span class=b>Number of Matches:</span> {{hit.Hit_hsps.Hsp|length}}
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350 </p>
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351 </div>
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352
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353 <a class=showmoretitles onclick="toggle_visibility('moretitles{{hit.Hit_num}}'); return false;" href=''>
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354 Show {{hit|othertitles|length}} more title(s)
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355 </a>
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356
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357 <div class=moretitles id=moretitles{{hit.Hit_num}}>
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358 {% for title in hit|othertitles %}
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359 <div class=title>
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360 <p class=hittitle>{{title.title}}</p>
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361 <p class=titleinfo>
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362 <span class=b>Sequence ID:</span> {{title.id}}
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363 </p>
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364 </div>
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365 {% endfor %}
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366 </div>
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367
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368 {% for hsp in hit.Hit_hsps.Hsp %}
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369 <div class=hotspots>
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370 <p>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</p>
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371
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372 <table class=hotspotstable>
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373 <tr>
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374 <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
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375 </tr>
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376 <tr>
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377 <td>{{hsp['Hsp_bit-score']|fmt('.1f')}} bits({{hsp.Hsp_score}})</td>
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378 <td>{{hsp.Hsp_evalue|fmt('.1f')}}</td>
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379 <td>{{ hsp.Hsp_identity }}/{{ hsp|len }}({{
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380 (hsp.Hsp_identity/hsp|len) |fmt('.0%') }})</td>
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381 <td>{{ hsp.Hsp_gaps }}/{{ hsp|len
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382 }}({{ (hsp.Hsp_gaps / hsp|len) | fmt('.0%') }})</td>
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383 <td>{{ hsp['Hsp_query-frame']|asframe }}/{{ hsp['Hsp_hit-frame']|asframe }}</td>
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384
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385 </tr>
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386 </table>
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387
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388 <pre>{{hsp|alignment_pre}}</pre>
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389
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390 </div>
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391 {% endfor %}
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392
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393 <p>
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394 {{hit.Hit_id}}
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395
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396 Hit {{hit.Hit_num}}
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397 </p>
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398 </div>
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399 {% endfor %}
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400 </div></div>
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401 </div>
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402
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403 </div>
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404 </body>
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405 </html>
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406