help/html/features/wrap.html

   1 #-------------------------------------------------------------------------------
   2 # Jalview - A Sequence Alignment Editor and Viewer (Version 2.5.1)
   3 # Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
   4 #
   5 # This file is part of Jalview.
   6 #
   7 # Jalview is free software: you can redistribute it and/or
   8 # modify it under the terms of the GNU General Public License
   9 # as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
  10 #
  11 # Jalview is distributed in the hope that it will be useful, but
  12 # WITHOUT ANY WARRANTY; without even the implied warranty
  13 # of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  14 # PURPOSE.  See the GNU General Public License for more details.
  15 #
  16 # You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  17 #-------------------------------------------------------------------------------
  18 <html>
  19 <!--
  20  * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
  21  * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
  22  *
  23  * This file is part of Jalview.
  24  *
  25  * Jalview is free software: you can redistribute it and/or
  26  * modify it under the terms of the GNU General Public License
  27  * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
  28  *
  29  * Jalview is distributed in the hope that it will be useful, but
  30  * WITHOUT ANY WARRANTY; without even the implied warranty
  31  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  32  * PURPOSE.  See the GNU General Public License for more details.
  33  *
  34  * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  35 -->
  36 <head><title>Wrap Alignment</title></head>
  37
  38 <body>
  39 <p><strong>View&#8594;Wrap alignment </strong></p>
  40 <p>Use this feature to wrap an alignment to the screen width. </p>
  41 <p>All output (HTML, Printing, JPG etc) will also be in this wrapped format.</p>
  42 <p>This is most useful when looking at alignments with less than 20 sequences.
  43 </p>
  44 <table width="480" border="1">
  45   <tr><td>
  46
  47 <table border="0"  cellpadding="0" cellspacing="0">
  48         <tr>
  49           <td colspan="6">&nbsp;</td>
  50           <td colspan="9">10<br>
  51             |</td>
  52           <td></td>
  53           <td colspan="9">20<br>
  54             |</td>
  55           <td></td>
  56         </tr>
  57         <tr>
  58           <td nowrap>ADHR_DROPS/7-107&nbsp;&nbsp;</td>
  59           <td bgcolor="#e6331a">K</td>
  60           <td bgcolor="#1ab3b3">H</td>
  61           <td bgcolor="#80b3e6">V</td>
  62           <td bgcolor="#80b3e6">C</td>
  63           <td bgcolor="#1ab3b3">Y</td>
  64           <td bgcolor="#80b3e6">V</td>
  65           <td bgcolor="#80b3e6">A</td>
  66           <td>D</td>
  67           <td bgcolor="#80b3e6">C</td>
  68           <td bgcolor="#e6994d">G</td>
  69           <td bgcolor="#e6994d">G</td>
  70           <td bgcolor="#80b3e6">I</td>
  71           <td>A</td>
  72           <td bgcolor="#80b3e6">L</td>
  73           <td>E</td>
  74           <td bgcolor="#1acc1a">T</td>
  75           <td bgcolor="#1acc1a">S</td>
  76           <td bgcolor="#e6331a">K</td>
  77           <td bgcolor="#80b3e6">V</td>
  78           <td bgcolor="#80b3e6">L</td>
  79           <td bgcolor="#80b3e6">M</td>
  80           <td>T</td>
  81           <td bgcolor="#e6331a">K</td>
  82           <td>N</td>
  83           <td bgcolor="#80b3e6">I</td>
  84           <td bgcolor="#80b3e6">A</td>
  85         </tr>
  86         <tr>
  87           <td nowrap>ADH_DROHE/5-105&nbsp;&nbsp;</td>
  88           <td>S</td>
  89           <td>N</td>
  90           <td bgcolor="#80b3e6">I</td>
  91           <td bgcolor="#80b3e6">I</td>
  92           <td bgcolor="#80b3e6">F</td>
  93           <td bgcolor="#80b3e6">V</td>
  94           <td bgcolor="#80b3e6">A</td>
  95           <td bgcolor="#e6994d">G</td>
  96           <td bgcolor="#80b3e6">L</td>
  97           <td bgcolor="#e6994d">G</td>
  98           <td bgcolor="#e6994d">G</td>
  99           <td bgcolor="#80b3e6">I</td>
 100           <td bgcolor="#e6994d">G</td>
 101           <td bgcolor="#80b3e6">L</td>
 102           <td bgcolor="#cc4dcc">D</td>
 103           <td bgcolor="#1acc1a">T</td>
 104           <td bgcolor="#1acc1a">S</td>
 105           <td bgcolor="#e6331a">R</td>
 106           <td>E</td>
 107           <td bgcolor="#80b3e6">I</td>
 108           <td bgcolor="#80b3e6">V</td>
 109           <td>K</td>
 110           <td>S</td>
 111           <td bgcolor="#e6994d">G</td>
 112           <td bgcolor="#cccc00">P</td>
 113           <td>K</td>
 114         </tr>
 115         <tr>
 116           <td nowrap>PGDH_HUMAN/6-106&nbsp;&nbsp;</td>
 117           <td bgcolor="#e6331a">K</td>
 118           <td bgcolor="#80b3e6">V</td>
 119           <td bgcolor="#80b3e6">A</td>
 120           <td bgcolor="#80b3e6">L</td>
 121           <td bgcolor="#80b3e6">V</td>
 122           <td bgcolor="#1acc1a">T</td>
 123           <td bgcolor="#e6994d">G</td>
 124           <td>A</td>
 125           <td bgcolor="#80b3e6">A</td>
 126           <td>Q</td>
 127           <td bgcolor="#e6994d">G</td>
 128           <td bgcolor="#80b3e6">I</td>
 129           <td bgcolor="#e6994d">G</td>
 130           <td>R</td>
 131           <td>A</td>
 132           <td>F</td>
 133           <td>A</td>
 134           <td bgcolor="#cc4dcc">E</td>
 135           <td bgcolor="#80b3e6">A</td>
 136           <td bgcolor="#80b3e6">L</td>
 137           <td bgcolor="#80b3e6">L</td>
 138           <td>L</td>
 139           <td bgcolor="#e6331a">K</td>
 140           <td bgcolor="#e6994d">G</td>
 141           <td>.</td>
 142           <td bgcolor="#80b3e6">A</td>
 143         </tr>
 144         <tr>
 145           <td height="5"></td>
 146         </tr>
 147         <tr>
 148           <td colspan="6">&nbsp;</td>
 149           <td colspan="9">36<br>
 150             |</td>
 151           <td></td>
 152           <td colspan="9">46<br>
 153             |</td>
 154           <td></td>
 155         </tr>
 156         <tr>
 157           <td nowrap>ADHR_DROPS/7-107&nbsp;&nbsp;</td>
 158           <td bgcolor="#e6331a">K</td>
 159           <td bgcolor="#80b3e6">L</td>
 160           <td bgcolor="#80b3e6">A</td>
 161           <td bgcolor="#80b3e6">I</td>
 162           <td bgcolor="#80b3e6">L</td>
 163           <td>Q</td>
 164           <td>S</td>
 165           <td bgcolor="#80b3e6">V</td>
 166           <td>E</td>
 167           <td bgcolor="#1acc1a">N</td>
 168           <td bgcolor="#cccc00">P</td>
 169           <td bgcolor="#cccc00">P</td>
 170           <td>.</td>
 171           <td>.</td>
 172           <td>.</td>
 173           <td>.</td>
 174           <td>.</td>
 175           <td>.</td>
 176           <td>.</td>
 177           <td>.</td>
 178           <td>A</td>
 179           <td bgcolor="#80b3e6">I</td>
 180           <td bgcolor="#80b3e6">A</td>
 181           <td bgcolor="#1acc1a">Q</td>
 182           <td bgcolor="#80b3e6">L</td>
 183           <td>Q</td>
 184         </tr>
 185         <tr>
 186           <td nowrap>ADH_DROHE/5-105&nbsp;&nbsp;</td>
 187           <td>N</td>
 188           <td bgcolor="#80b3e6">L</td>
 189           <td bgcolor="#80b3e6">V</td>
 190           <td bgcolor="#80b3e6">V</td>
 191           <td bgcolor="#80b3e6">L</td>
 192           <td bgcolor="#cc4dcc">D</td>
 193           <td>R</td>
 194           <td bgcolor="#80b3e6">I</td>
 195           <td bgcolor="#cc4dcc">D</td>
 196           <td bgcolor="#1acc1a">N</td>
 197           <td bgcolor="#cccc00">P</td>
 198           <td bgcolor="#80b3e6">A</td>
 199           <td>A</td>
 200           <td>.</td>
 201           <td>.</td>
 202           <td>.</td>
 203           <td>.</td>
 204           <td>.</td>
 205           <td>.</td>
 206           <td>.</td>
 207           <td>.</td>
 208           <td bgcolor="#80b3e6">I</td>
 209           <td bgcolor="#80b3e6">A</td>
 210           <td bgcolor="#cc4dcc">E</td>
 211           <td bgcolor="#80b3e6">L</td>
 212           <td>K</td>
 213         </tr>
 214         <tr>
 215           <td nowrap>PGDH_HUMAN/6-106&nbsp;&nbsp;</td>
 216           <td bgcolor="#e6331a">K</td>
 217           <td bgcolor="#80b3e6">V</td>
 218           <td bgcolor="#80b3e6">A</td>
 219           <td bgcolor="#80b3e6">L</td>
 220           <td bgcolor="#80b3e6">V</td>
 221           <td bgcolor="#cc4dcc">D</td>
 222           <td>W</td>
 223           <td>N</td>
 224           <td>L</td>
 225           <td>E</td>
 226           <td bgcolor="#80b3e6">A</td>
 227           <td bgcolor="#e6994d">G</td>
 228           <td>.</td>
 229           <td>.</td>
 230           <td>.</td>
 231           <td>.</td>
 232           <td>.</td>
 233           <td>.</td>
 234           <td>.</td>
 235           <td>V</td>
 236           <td>Q</td>
 237           <td bgcolor="#80b3e6">C</td>
 238           <td>K</td>
 239           <td>A</td>
 240           <td bgcolor="#80b3e6">A</td>
 241           <td>L</td>
 242         </tr>
 243         <tr>
 244           <td height="5"></td>
 245         </tr>
 246         <tr>
 247           <td colspan="6">&nbsp;</td>
 248           <td colspan="9">62<br>
 249             |</td>
 250           <td></td>
 251           <td colspan="9">72<br>
 252             |</td>
 253           <td></td>
 254         </tr>
 255         <tr>
 256           <td nowrap>ADHR_DROPS/7-107&nbsp;&nbsp;</td>
 257           <td>S</td>
 258           <td bgcolor="#80b3e6">I</td>
 259           <td>K</td>
 260           <td bgcolor="#1ab3b3">H</td>
 261           <td>S</td>
 262           <td>.</td>
 263           <td>.</td>
 264           <td>.</td>
 265           <td>.</td>
 266           <td>T</td>
 267           <td>Q</td>
 268           <td bgcolor="#80b3e6">I</td>
 269           <td bgcolor="#80b3e6">F</td>
 270           <td bgcolor="#80b3e6">F</td>
 271           <td bgcolor="#80b3e6">W</td>
 272           <td>T</td>
 273           <td bgcolor="#80b3e6">F</td>
 274           <td bgcolor="#cc4dcc">D</td>
 275           <td bgcolor="#80b3e6">V</td>
 276           <td bgcolor="#1acc1a">T</td>
 277           <td bgcolor="#80b3e6">M</td>
 278           <td bgcolor="#80b3e6">A</td>
 279           <td>R</td>
 280           <td bgcolor="#cc4dcc">E</td>
 281           <td bgcolor="#cc4dcc">E</td>
 282           <td>M</td>
 283         </tr>
 284         <tr>
 285           <td nowrap>ADH_DROHE/5-105&nbsp;&nbsp;</td>
 286           <td>A</td>
 287           <td bgcolor="#80b3e6">L</td>
 288           <td>N</td>
 289           <td bgcolor="#cccc00">P</td>
 290           <td>.</td>
 291           <td>.</td>
 292           <td>.</td>
 293           <td>.</td>
 294           <td>K</td>
 295           <td>V</td>
 296           <td>T</td>
 297           <td bgcolor="#80b3e6">I</td>
 298           <td bgcolor="#1acc1a">T</td>
 299           <td bgcolor="#80b3e6">F</td>
 300           <td bgcolor="#1ab3b3">Y</td>
 301           <td bgcolor="#cccc00">P</td>
 302           <td bgcolor="#1ab3b3">Y</td>
 303           <td bgcolor="#cc4dcc">D</td>
 304           <td bgcolor="#80b3e6">V</td>
 305           <td bgcolor="#1acc1a">T</td>
 306           <td bgcolor="#80b3e6">V</td>
 307           <td bgcolor="#cccc00">P</td>
 308           <td>L</td>
 309           <td>A</td>
 310           <td bgcolor="#cc4dcc">E</td>
 311           <td>T</td>
 312         </tr>
 313         <tr>
 314           <td nowrap>PGDH_HUMAN/6-106&nbsp;&nbsp;</td>
 315           <td>D</td>
 316           <td>E</td>
 317           <td>Q</td>
 318           <td bgcolor="#80b3e6">F</td>
 319           <td>E</td>
 320           <td bgcolor="#cccc00">P</td>
 321           <td>.</td>
 322           <td>.</td>
 323           <td>.</td>
 324           <td>Q</td>
 325           <td>K</td>
 326           <td bgcolor="#1acc1a">T</td>
 327           <td bgcolor="#80b3e6">L</td>
 328           <td bgcolor="#80b3e6">F</td>
 329           <td bgcolor="#80b3e6">I</td>
 330           <td>Q</td>
 331           <td bgcolor="#80b3e6">C</td>
 332           <td bgcolor="#cc4dcc">D</td>
 333           <td bgcolor="#80b3e6">V</td>
 334           <td>A</td>
 335           <td>D</td>
 336           <td>Q</td>
 337           <td>Q</td>
 338           <td bgcolor="#1acc1a">Q</td>
 339           <td>L</td>
 340           <td>.</td>
 341         </tr>
 342         <tr>
 343           <td height="5"></td>
 344         </tr>
 345
 346
 347       </table>
 348 </table>
 349
 350
 351 </body>
 352 </html>