Mercurial > repos > jankanis > blast2html
annotate blast_html.html.jinja @ 17:8e61627a87f1
make html more semantic
author | Jan Kanis <jan.code@jankanis.nl> |
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date | Tue, 13 May 2014 12:54:03 +0200 |
parents | db7e4ee3be03 |
children | 67ddcb807b7d |
rev | line source |
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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> |
16 | 7 |
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8 <style> |
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9 body { |
16 | 10 color: #333333; |
11
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11 font-family: Arial,Sans-Serif; |
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12 } |
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13 |
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14 :link { |
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15 color: #336699; |
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16 } |
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17 |
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18 .right { |
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19 float: right; |
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20 } |
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21 |
5
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22 #content { |
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23 margin: 0 2em; |
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24 padding: 0.5em; |
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25 border: 1px solid #888888; |
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26 background-color: #d3dff5; |
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27 } |
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28 |
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29 h1, h2, h3, h4, h5, h6 { |
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30 color: #2A6979; |
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31 font-family: arial,verdana,sans-serif; |
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32 letter-spacing: -1px; |
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33 margin: 1.2em 0 0.3em; |
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34 } |
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35 |
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36 h1 { |
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37 border-bottom: 1px solid #CCCCCC; |
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38 font-size: 150%; |
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39 padding-bottom: 0.1em; |
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40 } |
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41 |
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42 h2 { |
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43 font-size: 120%; |
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44 font-weight: bold; |
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45 } |
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46 |
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47 h4.darkHeader { |
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48 color: #4D4D4D; |
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49 letter-spacing: 0; |
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50 font-weight: bold; |
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51 } |
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52 |
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53 #nodata { |
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54 font-weight: bold; |
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55 } |
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56 |
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57 .headerdata { |
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58 font-size: 90%; |
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59 } |
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60 .headerdata .param { |
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61 font-weight: bold; |
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62 text-align: right; |
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63 padding: 0 1em; |
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64 } |
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65 |
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66 .grey { |
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67 background-color: #eeeeee; |
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68 border: 1px solid #cccccc; |
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69 padding: 1em; |
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70 } |
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71 |
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72 .white { |
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73 background-color: white; |
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74 border: 1px solid #cccccc; |
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75 padding: 1.5em 2%; |
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76 } |
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77 |
8 | 78 .graphicrow { |
79 clear: left; | |
80 width: 100%; | |
81 } | |
82 | |
83 .graphicitem { | |
84 float: left; | |
85 } | |
86 | |
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87 |
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88 |
16 | 89 .graphics .grey { |
90 text-align: center; | |
91 } | |
92 | |
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93 .graphic { |
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94 background-color: white; |
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95 border: 2px solid black; |
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96 padding: .5em 1.5em; |
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97 margin: auto; |
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98 } |
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99 |
8 | 100 .centered, #defline, div.legend, div.tablewrapper { |
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101 margin-left: auto; |
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102 margin-right: auto; |
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103 } |
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104 |
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105 #defline { |
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106 background-color: white; |
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107 border: 1px solid black; |
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108 margin: .5em auto; |
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109 padding-left: .2em; |
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110 padding-right: .2em; |
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111 max-width: 50em; |
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112 text-align: left; |
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113 height: 2.8em; |
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114 overflow-y: hidden; |
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115 } |
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116 |
8 | 117 div.legend { |
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118 max-width: 40em; |
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119 } |
8 | 120 div.legend div { |
121 width: 100%; | |
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122 color: white; |
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123 font-weight: bold; |
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124 border-spacing: 0; |
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125 } |
8 | 126 div.legend div .graphicitem { |
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127 width: 20%; |
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128 padding: 0; |
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129 margin: 0; |
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130 border: none; |
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131 } |
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132 |
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133 div.tablewrapper { |
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134 width: 50%; |
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135 min-width: 60em; |
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136 } |
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137 |
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138 /* For small widths we give the graphic 100% */ |
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139 @media (max-width: 72.5em) { |
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140 div.tablewrapper { |
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141 width: 100%; |
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142 min-width: 0px; |
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143 } |
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144 } |
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145 |
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146 .scale { |
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147 width: 100%; |
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148 margin: .5em 0; |
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149 font-weight: bold; |
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150 } |
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151 .scale div { |
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152 color: red; |
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153 text-align: left; |
6 | 154 } |
8 | 155 .scale .graphicrow { |
156 margin: .5em 0 .5em 0; | |
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157 color: white; |
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158 } |
8 | 159 .scale .graphicitem div { |
160 margin: 0 1px; | |
161 padding: 0 2px; | |
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162 text-align: right; |
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163 background-color: red; |
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164 color: white; |
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165 } |
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166 .scale .graphicitem:first-child div { |
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167 margin-left: 0px; |
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168 } |
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169 .scale .graphicitem:last-child div { |
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170 margin-right: 0px; |
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171 } |
8 | 172 |
173 a.matchresult { | |
174 display: block; | |
175 margin: 0; | |
176 padding: 0; | |
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177 } |
8 | 178 div.matchrow { |
179 margin-top: 4px; | |
6 | 180 } |
8 | 181 div.matchrow, div.matchitem { |
182 height: 4px; | |
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183 } |
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184 |
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185 |
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186 table.descriptiontable { |
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187 font-size: 85%; |
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188 border: 1px solid #97b0c8; |
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189 border-spacing: 0; |
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190 color: #222222; |
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191 line-height: 1.3em; |
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192 background-color: white; |
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193 } |
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194 table.descriptiontable col:first-child { |
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195 width: 100%; |
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196 } |
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197 table.descriptiontable tr:hover { |
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198 background-color: #D5DEE3; |
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199 } |
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200 table.descriptiontable th { |
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201 color: #14376C; |
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202 font-weight: normal; |
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203 background-color: #F0F0F0; |
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204 background: linear-gradient(#FFFFFF, #F0F0F0); |
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205 border-bottom: 1px solid #D4DFE9; |
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206 border-right: 1px solid #CFCFCF; |
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207 border-left: 0px solid black; |
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208 border-top: 0px solid black; |
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209 } |
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210 table.descriptiontable td { |
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211 overflow: hidden; |
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212 text-align: center; |
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213 padding: .4em .8em; |
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214 } |
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215 table.descriptiontable td div { |
9 | 216 width: 1em; |
217 overflow: visible; | |
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218 white-space: nowrap; |
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219 text-align: left; |
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220 } |
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221 |
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222 |
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223 |
17 | 224 .alignments .white { |
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225 padding: 1.5em 1em; |
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226 } |
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227 |
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228 .alignment { |
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229 border-top: 1px solid black; |
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230 padding-left: 1em; |
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231 padding-right: 1em; |
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232 } |
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233 |
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234 div.linkheader { |
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235 padding-top: .2em; |
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236 font-size: 85%; |
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237 color: #14376C; |
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238 } |
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239 div.linkheader a.linkheader { |
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240 margin-right: 1em; |
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241 } |
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242 div.linkheader .right a { |
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243 text-decoration: none; |
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244 } |
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245 |
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246 .title .hittitle { |
16 | 247 color: #222222; |
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248 margin-bottom: .3em; |
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249 } |
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250 .title .titleinfo { |
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251 font-size: 80%; |
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252 margin-top: 0; |
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253 margin-bottom: .3em; |
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254 } |
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255 .title .titleinfo .b { |
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256 color: #606060; |
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257 font-weight: bold; |
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258 font-size: 90%; |
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259 } |
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260 |
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261 .moretitles { |
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262 margin: 1.2em; |
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263 } |
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264 .moretitles .titleinfo { |
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265 margin: 0; |
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266 padding: 0; |
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267 } |
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268 .moretitles .hittitle { |
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269 margin: .4em 0 .2em 0; |
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270 padding: 0; |
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271 } |
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272 |
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273 a.showmoretitles { |
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274 font-size: 75%; |
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275 color: #336699; |
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276 font-weight: bold; |
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277 margin-top: 0; |
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278 } |
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279 a.showmoretitles:hover { |
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280 } |
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281 |
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282 .hotspot { |
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283 color: #606060; |
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284 font-family: verdana, arial, sans-serif; |
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285 margin-bottom: 2.5em; |
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286 } |
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287 |
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288 .hotspot p.range { |
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289 font-size: 70%; |
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290 margin-top: 0; |
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291 margin-top: 1em; |
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292 margin-bottom: .2em; |
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293 } |
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294 .hotspot p.range span.range { |
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295 font-weight: bold; |
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296 } |
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297 .hotspot p.range a.range { |
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298 margin-left: .5em; |
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299 } |
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300 |
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301 table.hotspotstable { |
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302 border-top: 1px solid; |
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303 border-bottom: 1px solid; |
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304 text-align: left; |
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305 border-collapse: collapse; |
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306 } |
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307 table.hotspotstable th, table.hotspotstable td { |
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308 padding: .1em 1em; |
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309 } |
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310 table.hotspotstable th { |
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311 font-size: 70%; |
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312 } |
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313 table.hotspotstable td { |
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314 min-width: 7em; |
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315 color: #222222; |
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316 font-size: 80%; |
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317 } |
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318 |
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319 pre.alignmentgraphic { |
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320 color: #222222; |
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321 } |
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322 |
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323 |
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324 </style> |
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325 |
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326 <script type="text/javascript"> |
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327 function toggle_visibility(id) { |
16 | 328 var e = document.getElementById(id); |
329 if(e.style.display != 'block') | |
330 e.style.display = 'block'; | |
331 else | |
332 e.style.display = 'none'; | |
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333 } |
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334 </script> |
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335 |
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336 </head> |
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337 |
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338 |
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339 <body> |
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340 <div id=content> |
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341 <h1>Nucleotide Sequence ({{length}} letters)</h1> |
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342 |
17 | 343 <section class=header> |
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344 |
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345 <table class=headerdata> |
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346 {% for param, value in params %} |
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347 <tr><td class=param>{{param}}:</td><td>{{value}}</td></tr> |
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348 {% endfor %} |
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349 </table> |
16 | 350 |
17 | 351 </section> |
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352 |
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353 {% if not (blast.BlastOutput_iterations.findall('Iteration') and |
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354 blast.BlastOutput_iterations.Iteration.Iteration_hits.findall('Hit')) %} |
17 | 355 <section class=nodata> |
16 | 356 <h2>No Results</h2> |
357 <div class=grey> | |
358 No Matches | |
359 </div> | |
17 | 360 </section> |
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361 {% else %} |
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362 |
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363 |
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364 |
17 | 365 <section class=graphics> |
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366 <h2>Graphic Summary</h2> |
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367 |
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368 <div class=grey> |
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369 <h3 class=centered>Distribution of {{hits|length}} Blast Hits on the Query Sequence</h3> |
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370 |
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371 <div id=defline>Mouse-over to show defline and scores, click to show alignments</div> |
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372 |
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373 <div class=graphic> |
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374 <h4 class=darkHeader>Color key for alignment scores</h4> |
16 | 375 <div class=legend><div class=graphicrow> |
376 <div class=graphicitem style="background-color: {{colors[0]}}"><40</div> | |
377 <div class=graphicitem style="background-color: {{colors[1]}}">40–50</div> | |
378 <div class=graphicitem style="background-color: {{colors[2]}}">50–80</div> | |
379 <div class=graphicitem style="background-color: {{colors[3]}}">80–200</div> | |
380 <div class=graphicitem style="background-color: {{colors[4]}}">200≤</div> | |
8 | 381 </div></div> |
16 | 382 <div style="clear: left"></div> |
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383 |
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384 <div class=tablewrapper> |
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385 |
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386 <div class=scale> |
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387 <div>query:</div> |
16 | 388 <div class=graphicrow> |
389 {% for s in queryscale %} | |
390 <div class=graphicitem style="width: {{s.width}}%"> | |
391 <div>{{s.label}}</div> | |
392 </div> | |
393 {% endfor %} | |
394 </div> | |
395 <div style="clear: left"></div> | |
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396 </div> |
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397 |
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398 {% for line in match_colors %} |
8 | 399 <a class=matchresult |
16 | 400 href="{{line.link}}" |
401 onmouseover='document.getElementById("defline").innerHTML="{{line.defline|js_string_escape}}"' | |
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402 onmouseout='document.getElementById("defline").innerHTML="Mouse-over to show defline and scores, click to show alignments"' |
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403 title="{{line.defline}}"> |
8 | 404 <div class="matchrow graphicrow"> |
16 | 405 {% for match in line.colors %} |
406 <div class="matchitem graphicitem" | |
407 style="background-color: {{match[1]}}; width: {{match[0]}}%"></div> | |
408 {% endfor %} | |
8 | 409 </div> |
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410 </a> |
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411 |
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412 {% endfor %} |
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413 </div> |
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414 </div> |
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415 </div> |
17 | 416 </section> |
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417 |
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418 |
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419 |
17 | 420 <section class=descriptions> |
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421 <h2>Descriptions</h2> |
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422 |
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423 <div class=grey><div class=white> |
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424 <h4 class=darkHeader>Sequences producing significant alignments:</h4> |
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425 |
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426 <table class=descriptiontable> |
16 | 427 <col/><col/><col/><col/><col/><col/><col/> |
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428 <tr> |
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429 <th>Description</th> |
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430 <th>Max score</th> |
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431 <th>Total score</th> |
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432 <th>Query cover</th> |
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433 <th>E value</th> |
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434 <th>Ident</th> |
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435 <th>Accession</th> |
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436 </tr> |
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437 {% for hit in hit_info %} |
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438 <tr> |
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439 <td><div><a href="#hit{{hit.link_id}}" |
16 | 440 title="{{hit.title}}" |
441 id="description{{hit.link_id}}"> | |
442 {{hit.title}} | |
443 </a></div></td> | |
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444 <td>{{hit.maxscore}}</td> |
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445 <td>{{hit.totalscore}}</td> |
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446 <td>{{hit.cover}}</td> |
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447 <td>{{hit.e_value}}</td> |
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448 <td>{{hit.ident}}</td> |
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449 <td><a href="{{genelink(hit.hit|hitid)}}">{{hit.accession}}</a></td> |
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450 </tr> |
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451 {% endfor %} |
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452 </table> |
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453 |
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454 </div></div> |
17 | 455 </section> |
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456 |
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457 |
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458 |
17 | 459 <section class=alignments> |
16 | 460 <h2>Alignments</h2> |
461 | |
462 <div class=grey><div class=white> | |
463 {% for hit in hits %} | |
464 <div class=alignment id=hit{{hit.Hit_num}}> | |
465 | |
466 <div class=linkheader> | |
467 <div class=right><a href="#description{{hit.Hit_num}}">Descriptions</a></div> | |
468 <a class=linkheader href="{{genelink(hit|hitid)}}">GenBank</a> | |
469 <a class=linkheader href="{{genelink(hit|hitid, 'graph')}}">Graphics</a> | |
470 </div> | |
471 | |
472 <div class=title> | |
473 <p class=hittitle>{{hit|firsttitle}}</p> | |
474 <p class=titleinfo> | |
475 <span class=b>Sequence ID:</span> <a href="{{genelink(hit|hitid)}}">{{hit|seqid}}</a> | |
476 <span class=b>Length:</span> {{hit.Hit_len}} | |
477 <span class=b>Number of Matches:</span> {{hit.Hit_hsps.Hsp|length}} | |
478 </p> | |
479 </div> | |
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480 |
16 | 481 {% if hit|othertitles|length %} |
482 <a class=showmoretitles onclick="toggle_visibility('moretitles{{hit.Hit_num|js_string_escape}}'); return false;" href=''> | |
483 See {{hit|othertitles|length}} more title(s) | |
484 </a> | |
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485 |
16 | 486 <div class=moretitles id=moretitles{{hit.Hit_num}} style="display: none"> |
487 {% for title in hit|othertitles %} | |
488 <div class=title> | |
489 <p class=hittitle>{{title.title}}</p> | |
490 <p class=titleinfo> | |
491 <span class=b>Sequence ID:</span> <a href="{{genelink(title.hitid)}}">{{title.id}}</a> | |
492 </p> | |
493 </div> | |
494 {% endfor %} | |
495 </div> | |
496 {% endif %} | |
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497 |
16 | 498 {% for hsp in hit.Hit_hsps.Hsp %} |
499 <div class=hotspot> | |
500 <p class=range> | |
501 <span class=range>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</span> | |
502 <a class=range href="{{genelink(hit|hitid, 'genbank', hsp)}}">GenBank</a> | |
503 <a class=range href="{{genelink(hit|hitid, 'graph', hsp)}}">Graphics</a> | |
504 </p> | |
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505 |
16 | 506 <table class=hotspotstable> |
507 <tr> | |
508 <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th> | |
509 </tr> | |
510 <tr> | |
511 <td>{{hsp['Hsp_bit-score']|fmt('.1f')}} bits({{hsp.Hsp_score}})</td> | |
512 <td>{{hsp.Hsp_evalue|fmt('.1f')}}</td> | |
513 <td>{{ hsp.Hsp_identity }}/{{ hsp|len }}({{ | |
514 (hsp.Hsp_identity/hsp|len) |fmt('.0%') }})</td> | |
515 <td>{{ hsp.Hsp_gaps }}/{{ hsp|len | |
516 }}({{ (hsp.Hsp_gaps / hsp|len) | fmt('.0%') }})</td> | |
517 <td>{{ hsp['Hsp_query-frame']|asframe }}/{{ hsp['Hsp_hit-frame']|asframe }}</td> | |
518 </tr> | |
519 </table> | |
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520 |
16 | 521 <pre class=alignmentgraphic>{{hsp|alignment_pre}}</pre> |
522 </div> | |
523 {% endfor %} | |
524 | |
525 </div> | |
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526 |
16 | 527 {% endfor %} |
528 </div></div> | |
17 | 529 </section> |
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530 |
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531 {% endif %} |
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532 </div> |
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533 </body> |
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534 </html> |
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535 |
16 | 536 {# |
537 Local Variables: | |
538 tab-width: 2 | |
539 indent-tabs-mode: nil | |
540 End: | |
541 #} |