JAL-4019 Clarification of position on 'X' in help text
[jalview.git] / help / help / html / colourSchemes / index.html
index f0ae161..9ba0578 100755 (executable)
@@ -198,6 +198,111 @@ td {
                                                        <td></td>
                                                </tr>
                                                <tr>
+                                                       <td>gecos Flower</td>
+
+                                                       <td bgcolor="#b18a51"></td>
+                                                       <td bgcolor="#83bff1"></td>
+                                                       <td bgcolor="#0bcec6"></td>
+                                                       <td bgcolor="#01a578"></td>
+                                                       <td bgcolor="#ff5701"></td>
+                                                       <td bgcolor="#7295ae"></td>
+                                                       <td bgcolor="#2da0a1"></td>
+                                                       <td bgcolor="#b1c23c"></td>
+                                                       <td bgcolor="#0194f9"></td>
+                                                       <td bgcolor="#f27663"></td>
+                                                       <td bgcolor="#df6e75"></td>
+                                                       <td bgcolor="#7fc3d7"></td>
+                                                       <td bgcolor="#fe9daf"></td>
+                                                       <td bgcolor="#fa559d"></td>
+                                                       <td bgcolor="#4fa32a"></td>
+                                                       <td bgcolor="#b4bd9b"></td>
+                                                       <td bgcolor="#d2b576"></td>
+                                                       <td bgcolor="#ff2ded"></td>
+                                                       <td bgcolor="#c96ecf"></td>
+                                                       <td bgcolor="#fd997b"></td>
+                                                       <td></td>
+                                                       <td></td>
+                                                       <td></td>
+                                               </tr>
+                                               <tr>
+                                                       <td>gecos Blossom</td>
+                                                       <td bgcolor="#8bc4b4"></td>
+                                                       <td bgcolor="#fc9502"></td>
+                                                       <td bgcolor="#b5c206"></td>
+                                                       <td bgcolor="#5fa505"></td>
+                                                       <td bgcolor="#0893fe"></td>
+                                                       <td bgcolor="#bf8527"></td>
+                                                       <td bgcolor="#dbb501"></td>
+                                                       <td bgcolor="#00d382"></td>
+                                                       <td bgcolor="#ff5701"></td>
+                                                       <td bgcolor="#9abaf3"></td>
+                                                       <td bgcolor="#cda5dc"></td>
+                                                       <td bgcolor="#fea527"></td>
+                                                       <td bgcolor="#f5a1b8"></td>
+                                                       <td bgcolor="#f74fa8"></td>
+                                                       <td bgcolor="#10d631"></td>
+                                                       <td bgcolor="#7e9d59"></td>
+                                                       <td bgcolor="#00a29c"></td>
+                                                       <td bgcolor="#fe08fb"></td>
+                                                       <td bgcolor="#ff4e7a"></td>
+                                                       <td bgcolor="#87c0e4"></td>
+                                                       <td></td>
+                                                       <td></td>
+                                                       <td></td>
+                                               </tr>
+                                               <tr>
+                                                       <td>gecos Sunset</td>
+                                                       <td bgcolor="#fea0fd"></td>
+                                                       <td bgcolor="#85746a"></td>
+                                                       <td bgcolor="#abc8f5"></td>
+                                                       <td bgcolor="#2e7bbe"></td>
+                                                       <td bgcolor="#fc0cfe"></td>
+                                                       <td bgcolor="#8c6e81"></td>
+                                                       <td bgcolor="#677892"></td>
+                                                       <td bgcolor="#2799ff"></td>
+                                                       <td bgcolor="#dbc58e"></td>
+                                                       <td bgcolor="#fa21a1"></td>
+                                                       <td bgcolor="#e01e82"></td>
+                                                       <td bgcolor="#debecc"></td>
+                                                       <td bgcolor="#d13e7b"></td>
+                                                       <td bgcolor="#ff385d"></td>
+                                                       <td bgcolor="#5766f9"></td>
+                                                       <td bgcolor="#e7b4fd"></td>
+                                                       <td bgcolor="#a658b7"></td>
+                                                       <td bgcolor="#ff3701"></td>
+                                                       <td bgcolor="#cb5339"></td>
+                                                       <td bgcolor="#fe51b8"></td>
+                                                       <td></td>
+                                                       <td></td>
+                                                       <td></td>
+                                               </tr>
+                                               <tr>
+                                                       <td>gecos Ocean</td>
+                                                       <td bgcolor="#c6ca9b"></td>
+                                                       <td bgcolor="#0ca0a8"></td>
+                                                       <td bgcolor="#0adfc3"></td>
+                                                       <td bgcolor="#4cdfa1"></td>
+                                                       <td bgcolor="#c68136"></td>
+                                                       <td bgcolor="#8bd3d1"></td>
+                                                       <td bgcolor="#60dac9"></td>
+                                                       <td bgcolor="#33a551"></td>
+                                                       <td bgcolor="#00cffe"></td>
+                                                       <td bgcolor="#f2baaa"></td>
+                                                       <td bgcolor="#bb8a83"></td>
+                                                       <td bgcolor="#40a090"></td>
+                                                       <td bgcolor="#a48b88"></td>
+                                                       <td bgcolor="#ab88ae"></td>
+                                                       <td bgcolor="#afd365"></td>
+                                                       <td bgcolor="#6d9b74"></td>
+                                                       <td bgcolor="#8d9566"></td>
+                                                       <td bgcolor="#758aee"></td>
+                                                       <td bgcolor="#bac3fc"></td>
+                                                       <td bgcolor="#e9bea4"></td>
+                                                       <td></td>
+                                                       <td></td>
+                                                       <td></td>
+                                               </tr>
+                                               <tr>
                                                        <td>Hydrophobicity</td>
                                                        <td bgcolor="#ad0052"></td>
                                                        <td bgcolor="#0000ff"></td>
@@ -354,13 +459,11 @@ td {
                                                        <td>I</td>
                                                        <!--Inosine-->
                                                        <td>X</td>
-                                                       <!--Xanthine-->
+                                                       <!--Unknown (sometimes Xanthine)-->
                                                        <td>R</td>
                                                        <!--Unknown Purine-->
                                                        <td>Y</td>
                                                        <!--Unknown Pyrimidine-->
-                                                       <td>N</td>
-                                                       <!--Unknown-->
                                                        <td>W</td>
                                                        <!--Weak nucleotide (A or T)-->
                                                        <td>S</td>
@@ -376,7 +479,9 @@ td {
                                                        <td>D</td>
                                                        <!--Not C (A or G or T)-->
                                                        <td>V</td>
-                                                       <!--Not T (A or G or C-->
+                                                       <!--Not T (A or G or C)-->
+                                                       <td>N</td>
+                                                       <!--Unknown-->
                                                </tr>
                                                <tr>
                                                        <td height="24">Nucleotide</td>
@@ -400,6 +505,27 @@ td {
                                                        <td></td>
                                                </tr>
                                                <tr>
+                                                       <td height="24">Nucleotide Ambiguity</td>
+                                                       <td bgcolor="#f0fff0"></td>
+                                                       <td bgcolor="#f0fff0"></td>
+                                                       <td bgcolor="#f0fff0"></td>
+                                                       <td bgcolor="#f0fff0"></td>
+                                                       <td bgcolor="#f0fff0"></td>
+                                                       <td bgcolor="#ffffff"></td>
+                                                       <td bgcolor="#4f6f6f"></td>
+                                                       <td bgcolor="#CD5C5C"></td>
+                                                       <td bgcolor="#008000"></td>
+                                                       <td bgcolor="#4682B4"></td>
+                                                       <td bgcolor="#FF8C00"></td>
+                                                       <td bgcolor="#9ACD32"></td>
+                                                       <td bgcolor="#9932CC"></td>
+                                                       <td bgcolor="#8b4513"></td>
+                                                       <td bgcolor="#808080"></td>
+                                                       <td bgcolor="#483D8B"></td>
+                                                       <td bgcolor="#b8860b"></td>
+                                                       <td bgcolor="#2f4f4f"></td>
+                                               </tr>
+                                               <tr>
                                                        <td height="24">Purine/Pyrimidine</td>
                                                        <td bgcolor="#FF83FA"></td>
                                                        <td bgcolor="#40E0D0"></td>