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/* base Vidjil style */
/* @default, @background, @highlight, @select, @secondary and @border have to be defined */

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@infoContainerHeight : 32px;
@locusSpacingMargin : 12px;
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/* default tag color */
@tagColor0 : #DC322F;
@tagColor1 : #cb4b16;
@tagColor2 : #b58900;
@tagColor3 : #268bd2;
@tagColor4 : #6c71c4;
@tagColor5 : #2aa198;
@tagColor6 : #d33682;
@tagColor7 : #859900;

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@patientTokenColor : #adffae;
@runTokenColor : #ffadad;
@genericTokenColor : #adccff;
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html{
  height: 100%;
  padding: 0px;
  margin: 0px;
  min-width: 1160px;
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  min-height: 250px
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}

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body, svg {
  font-family: @default-font;
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  font-size: 13px;
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  height : 100%;
  margin:0px;
  color : @default;
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  background : @border;
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}

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.cloneName {
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  font-family: @bold-font;
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}

.seq-fixed .cloneName, .listElem .cloneName {
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  bottom: 1px;
}
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/* for FF override */
textarea {
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  font-family: @default-font;
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  font-size: 100%;
}

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/* texts that are not sequences nor identifiers */

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#info, .popup_msg, .menu, .menu a
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{
}


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h2
{
  margin-top: 2px;
}

ul{
  padding-left:2px;
  margin-top: 3px;
  list-style-type: none;
}

#visu-container{
  -khtml-user-select: none;
  -webkit-user-select: none;
  -moz-user-select: -moz-none;
  -ms-user-select: none;
  user-select: none;
  height :100%;
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  margin : auto;
  overflow : hidden;
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  background : @background;
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}

#top-container {
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  height: @top_container_height;
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  width: 100%;
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  background: @background;
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  position : fixed;
  z-index:1;
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}

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#top-container.alert
{
   background: yellow;
}

#alert
{
   font-weight: bold;
   color: red;
}

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#tip-container {
  position: absolute;
  float: right;
  z-index: 50;
  right: 0px;
  top: 32px;
}

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#upload_summary {
  float: right;
  display:none;
  margin-right: 200px;
  position: relative;
  right: 200px;
  z-index: 10;
  background-color: @background;
}

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.upload_field {
  width: 100%;
}

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#menu-container {
    background: inherit;
}

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.scatterplot, .graph{
  -khtml-user-select: none;
  -webkit-user-select: none;
  -moz-user-select: -moz-none;
  -ms-user-select: none;
  user-select: none;
  overflow:hidden;
}

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#mid-container {
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  position : fixed;
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  top : @top_container_height;
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  bottom : 125px ;
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  width: -moz-calc(~"100%" - @margin + @margin);
  width: -webkit-calc(~"100%" - @margin + @margin);
  width: calc(~"100%" - @margin + @margin);
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  overflow: hidden;
  background: @background;
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  margin: @margin;
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}

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#right-container{
  -khtml-user-select: none;
  -webkit-user-select: none;
  -moz-user-select: -moz-none;
  -ms-user-select: none;
  user-select: none;
  float : right;
  width : 0px;
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}

#left-container {
  height:100%;
  width : @width_left_container;
  float : left;
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  overflow-y : none;
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  -khtml-user-select: auto;
  -webkit-user-select: auto;
  -moz-user-select: auto;
  -ms-user-select: auto;
  user-select: auto;
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  display : table;
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}

#visu, #visu2 {
  height : 50%;
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  width : 100%;
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}

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#visu2 {
max-height: calc(~"100%" - @margin)
}

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line {
  stroke: @secondary;
  stroke-width: 0.5;
}

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                        /* left-container - info */

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#info-row{
    height : 200px;
    display : table-row;
}

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#info{
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  font-size: 13px;
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  padding:3px;
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  background : @background;
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  display : table-cell;
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}

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.info_line {
    border-bottom: solid;
    border-bottom-width: 1px;
    border-color: @border;
}

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.locus_line {
  text-align: center;
}

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.info_row {
    min-width: 100px;
    display: inline-block;
}

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.locus_row {
  margin: 0 10px;
  display: inline-block;
  text-align: left;
}

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.info_row_content {
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    width: 100%;
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    display: inline-block;
}

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#info_data_file
{
  font-size: 200%;
}
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						  /*Style polyline / graph*/

.background_graph{
  fill : @background
}

.background_graph2{
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  fill : @background
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}

.graph_line{
  stroke-width : 2.5px;
  cursor:pointer;
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  stroke: @default;
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}

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.graph_data{
    fill: none;
    stroke-width: 8px;
    opacity: 0.3;
    cursor:pointer;
}

.graph_data:hover{
    opacity:0.8;
}

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.graph_inactive{
  stroke-width : 1.5px;
  cursor:pointer;
  display:none;
}

.graph_select{
  stroke-width : 5px;
  cursor:pointer;
  stroke-dasharray : 20px,5px ;
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  stroke: @default;
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}

.graph_focus{
  stroke-width : 5px;
  cursor:pointer;
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  stroke: @select;
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}

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.axis_m{
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  stroke : @default ;
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  opacity : 0.5 ;
  stroke-width : 20px;
}

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.axis_m_other {
  stroke: @default ;
  opacity: 0.25 ;
  stroke-width: 10px;
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  display: none;
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}

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.axis_h{
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  stroke : @default ;
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}

.axis_v{
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 display: none;
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}

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.axis_v_hidden, .axis_h_hidden{
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 display: none;
}

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.axis_button, .axis_leg{
  fill : @default;
}

#resolution1{
  fill : @background;
  opacity : 1;
}

#resolution5{
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    fill: @border;
    opacity: 0.6;
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}

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.graph_time{
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  fill : @default ;
  text-anchor:middle;
  font-size : 100%;
}

.graph_time2{
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  font-weight : bold;
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  fill : @default ;
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  text-anchor:middle;
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  font-size : 120%;
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}

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.graph_text{
  font-weight : bold;
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  fill : @default ;
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  text-anchor:end;
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  dominant-baseline: middle;
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}

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.graph_text2{
  font-weight : bold;
  fill : @default ;
}

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.graph_time:hover{
  cursor:pointer;
  fill : @select;
}

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.graph_menu{
  position: absolute;
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  top: 0px;
  right: 0px;
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  min-width: 22px;
  min-height: 18px;
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  text-align: center;
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  border-bottom: solid;
  border-left: solid;
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  border-color: @border;
  background : @background;
}
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.graph_list{
  display: none;
}

.graph_listElem:hover{
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  background : @border;
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  width: 100%;
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  cursor: move;
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  cursor: webkit-grab;
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}

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							  /*style scatterPlot element*/

.background_sp{
  fill : @background
}

.circle{
  cursor:pointer;
  -webkit-transition: fill 0.2s;
  -o-transition: fill  0.2s;
  -ms-transition: fill 0.2s;
  transition: fill 0.2s;
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  fill : @default;
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  stroke-width:4px;
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}

.circle_inactive{
  cursor:pointer;
  opacity: 0.5
}

.circle_select{
  stroke-width : 2.5px;
  stroke : @select;
  cursor:pointer;
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  fill : @default;
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}

.circle_focus{
  cursor:pointer;
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  fill : @select;
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}

.circle_hidden{
  -webkit-transition: fill 0.2s;
  display:none;
}

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.line_active {
  opacity: 1;
  stroke-width: 4px;
}

.line_inactive {
  display: none;
}

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.sp_legend{
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  fill : @default ;
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  font-weight : bold;
  text-anchor : middle;
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  dominant-baseline: middle;
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  cursor: pointer;
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}

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.sp_legend2{
  fill : @default ;
  opacity : 0.4;
  text-anchor : middle;
  dominant-baseline: middle;
}

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.sp_system{
  position:absolute;
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  top: -0.5em;
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}

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.sp_system_label{
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  color : @default ;
  height:0px;
  position:relative;
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  -webkit-transition: left 0.5s;
  transition: left 0.5s;
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}

.sp_system_label:hover{
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  color : @select ;
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  cursor: pointer;
}

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.sp_rotated_legend{
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  fill : @default ;
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  font-weight : bold;
  text-anchor : left;
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  cursor: pointer;
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}

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.sp_legend_focus{
  fill : @select;
  font-weight : bold;
  text-anchor : middle;
}

.sp_hidden_legend{
  display : none;
}

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.sp_line , .sp_subline{
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  stroke : @default ;
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}

.sp_subline{
  stroke-width : 0.5px;
  stroke-dasharray: 6,6;
}

.sp_subline_hidden{
  stroke-width : 0px;
}

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							  /*style list/data element*/
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/*Metric*/

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@top_container_height : 32px;
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@width_left_container : 475px;
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@width_highlight : 300px;
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@width_stats: 350px;
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@width_scrollbar : 30px;
@width_clusterBox :16px;
@width_starBox : 16px;
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@width_thumbBox : 16px;
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@width_axisBox : 52px;
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@width_infoBox : 20px;
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@width_systemBox : 12px;
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@width_listElem : (@width_left_container - @width_scrollbar);
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@margin : 6px;
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@margin_nameBox : 10px;

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.list:hover, .tagElem:hover, .data:hover{
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  background :@border;
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}

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#list, #data{
    border-top: solid;
    border-width: @margin;
    border-color : @border;
}

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#list-row, #data-row{
  display: table-row;
}

#list, #data{
  display:table-cell;
}

#data-row{
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  height : 0.1px;
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}

#list_clones{
  overflow-y : scroll;
  overflow-x : hidden;
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  height : calc(~"100% - 30px");  /*100% - list_menu height */
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  padding:2px;
}

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#list_data{
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    display: block;
    border-width: 4px;
    border-color: @border;
    overflow-y: scroll;
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}

.data_name{
  margin-left : 40px;
  width: 300px;
  margin-right : 10px;
  display : inline-block;
}

.data_value{
}

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.data {
    padding-right: 30px;
}

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.list{
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  width : 	445px;
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  display :	block;
  padding : 	2px;
}

.listElem{
  width : @width_listElem;
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  font-size: 13px;
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  cursor:pointer;
  -webkit-transition: color 0.2s;
  -o-transition: color  0.2s;
  -ms-transition: color 0.2s;
  transition: color 0.2s;
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  padding: 1px 4px 4px 1px;
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  height :14px;
}

.selected{
  color : @select;
}

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.nameBox {
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  width: 300px;
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  margin-right: @margin_nameBox;
  overflow: hidden;
  display: inline-block;
  height: 16px;
  position: relative;
  float:left;
  white-space:nowrap;
}

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.seq-fixed .nameBox {
  width: 250px;
}

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.list .axisBox, .axisBox span {
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  max-width: @width_axisBox;
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  float: right;
  overflow: hidden;
  display: inline-block;
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  max-height: 16px;
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  position: relative;
}

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.segmenter .axisBox>span {
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  margin : 0 3px;
}

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.identityBox {
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  font-family: @default-font;
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  text-align: right;
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}

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.identityBad {
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  color: #800;
}

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.identityGood {
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  color: #080;
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}

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.starBox{
  width: @width_starBox;
  float: right;
  height: 16px;
  display: inline-block;
  user-select :none;
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  overflow: hidden;
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}

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.thumbBox{
  width: @width_thumbBox;
  float: right;
  height: 16px;
  display: inline-block;
  user-select :none;
  overflow: hidden;
}

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.infoBox{
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  font-size: 90%;
  width: 16px;
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  float: right;
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  height: 15px;
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  display: inline-block;
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  user-select: none;
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  text-align: center;
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  border: solid;
  border-width: 1px;
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  border-color: @background;
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  border-radius: 5px;
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  margin: 0px 1px;
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}
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.infoBox:hover{
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  background: @highlight;
}
.infoBox-open{
  background: @border;
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}

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.systemBox, .systemBoxMenu {
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    display: inline-block;
    width: @width_systemBox;
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    height: @width_systemBox;
    line-height: @width_systemBox;
    vertical-align: middle;
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    text-align: center;
    border-radius: 3px;
    border-width: 1px;
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    margin: 2px 4px 4px 2px;
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    color: #fff;
    color: rgba(255, 255, 255, 0.7);
    font-size: 70%;
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    background: @border;
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}

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.systemBox {
    float: left;
}

.systemBoxNameMenu {
    display: inline-block;
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    min-width: 60px;
    padding: 2px 2px 1px 2px;
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    cursor : pointer;
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}	      

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.hiddenCheckBox {
    display : none;
}
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.clusterBox{
  width: @width_clusterBox;
  float: left;
  height: 12px;
  display: inline-block;
  text-align :center
}

.delBox{
  height: 12px;
  width: 12px;
  display: inline-block;
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  float: left;
  user-select: none;
  margin-right: 8px;
  margin-left: 2px;
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}



#new_name{
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  font-family: @monospace-font;
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  font-weight:bold;
}

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.list_sort{
    margin-right : 30px;
    float: right;
}

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							  /*style segmenter element*/
.list_select{
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  width : 445px;
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  display : block;
  border : solid;
  border-width : 2px;
  padding : 0px;
  border-color : @select;
}
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.list_focus{
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    background : @border !important;
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}
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.sequence-line { 
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    white-space: nowrap;
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}
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.sequence-line:hover { 
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    font-weight: bold;
}

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.seq-fixed {
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  position: relative;
  display: inline-block;
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//  width: (@width_left_container - @width_scrollbar);
  width : auto;
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  margin: -2px;
  padding: 2px;
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  padding-left: 5px;
  left:0px;
  cursor:pointer;
  z-index:1;
}

.seq-mobil {
  margin-left: @width_left_container;
  letter-spacing: 0.12em;
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  font-family : @monospace-font; 
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  position: relative;
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  bottom: 3px;
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  font-size:1em;
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}

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.seq-marge {
  word-spacing: normal;
}
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.V {
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  color: #000;
  background-color: #efe;
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}
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.D {
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  color: #000;
  background-color: #fee;
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}
.J {
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  color: #000;
  background-color: #ffffe2;
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}
.N, .N + .J, .N + .D {
  box-shadow: -1px 0 0 @default;
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}
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.highlight_border, .highlight_seq {
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    display: inline-flex;
    height: 1em;
    position: relative;
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}
.highlight_border {
    border-bottom: solid;
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    margin: -1px;
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    border-width: 4px;
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    -khtml-user-select: none;
    -webkit-user-select: none;
    -moz-user-select: -moz-none;
    -ms-user-select: none;
    user-select: none;
    pointer-events: none;
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    opacity: 0.3;
    bottom: 1px;
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}
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.highlight_seq {
  top: .9em;
  padding-bottom: 1px;
  opacity: 0.6;

  font-size: 70%;
  letter-spacing: .428em; /* (1-.7) / .7 */
  left: .214em;
}
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.highlight{
    display: inline-block;
    width: 0px;
    word-spacing: normal;
}
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span .substitution, span .indel {
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  font-weight: bold;
  color: #800;
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}
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span .substitution {
  border-bottom: 1px solid #800;
}
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							  /*tag*/

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.tagSelector{
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  padding: 5px;
  position: absolute;
  left: @width_left_container;
  top: 195px;
  width:220px;
  border:solid;
  display:none;
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  background: @background;
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}

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.dataMenu{
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  padding: 5px;
  position: absolute;
  left: @width_left_container;
  bottom: 195px;
  width:220px;
  border:solid;
  display:none;
    background: @background;
}

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.tagElem{
  margin:1px;
  height: 20px;
}

.tagElem:hover{
  border-color : white;
  cursor : pointer;
  color : @select;
}

.tagColorBox {
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  margin-right: 5px;
  height: 14px;
  width: 14px;
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  display: inline-block;
  cursor:pointer;
  user-select :none;
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  margin-bottom: -3px;
  margin-top: 3px;
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}

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#normalized_size {
    width: 80px;
}

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							  /*menu*/

.menu{
  padding:3px;
  float:left;
  margin:5px;
  cursor:pointer;
  background:inherit;
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}

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.menu a {
  text-decoration: none;
  color: inherit ;
}

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.submenu{
    width: 200px;
    display: inline-table;
}

.menu_box {
    margin: 0px;
    padding: 5px;
    border-top: solid;
    border-width: 1px;
    border-color:@border;
}
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.submenu{
    width: 200px;
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    display: inline-table;
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}

.menu_box {
    margin: 0px;
    padding: 5px;
    border-top: solid;
    border-width: 1px;
    border-color:@border;
}

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.div-menu-selector{
    float: right;
    margin: -2px 0px 0px 5px;
}

.menu-selector {
    background: @background;
    color: #657B83;
    height: 18px;
    width: 60px;
    -webkit-appearance: none;
    border: solid;
    border-width: 1px;
    border-radius: 2px;
}

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#file_menu, #axis_choice, #add_clone_menu {
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  z-index:2;
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  border:solid;
  position: fixed;
  top: 200px;
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  min-width:400px;
  margin-left:-250px;
  left :50%;
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  font-size: 13px;
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  padding: 10px;
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  background:@background;
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  display:none;
}

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#add_clone_menu {
  margin-left: -325px;
  min-width: 600px;
}

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#add_clone_menu > #addclone_input {
  margin-bottom: 10px;
  resize: none;
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  height: 12em;
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  width: 98%;
  border: 1px solid silver;
  border-radius: 0.1em;
  padding: 1%;
  -webkit-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075);
  -moz-box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075);
  box-shadow: inset 0 1px 1px rgba(0, 0, 0, 0.075);
  -webkit-transition: border linear .2s, box-shadow linear .2s;
  -moz-transition: border linear .2s, box-shadow linear .2s;
  -o-transition: border linear .2s, box-shadow linear .2s;
  transition: border linear .2s, box-shadow linear .2s;
  transition-property: border, box-shadow;
  transition-duration: 0.2s, 0.2s;
  transition-timing-function: linear, linear;
  transition-delay: 0s, 0s;
}

#add_clone_menu > #addclone_input.error {
  border: 1px solid @message_border_red;
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}

.buttonSelector {
  background : @background;
  cursor:pointer;
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  font-size: 13px;
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  margin :2px;
  display:block;
  text-align:left;
}

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.systemBoxNameMenu:hover, .focus_selected:hover, .button:hover,.button_right:hover, .buttonSelector:hover, .button2:hover{
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  background : @border;
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  color : @select;
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  cursor: pointer;
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}


/*	//////////////////////////////////////////////////////////////	*/


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.popup_container{
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  z-index:20;
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  border:solid; 
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  min-width:500px;
  max-width:80%;
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  font-size: 13px; 
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  padding: 10px;
  background: @background;
  display:none;
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  position:fixed;
  left: 50%;
  top: 50%;
  -ms-transform: translate(-50%,-50%);
  -moz-transform:translate(-50%,-50%);
  -webkit-transform: translate(-50%,-50%);
   transform: translate(-50%,-50%);
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}

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/* Main style for <a> Used in particular in .popup_container, on login screen, in news, in links to results (for patient list and patient info)  */
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a {
  color: @default;
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}

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a:hover {
  color: @select;
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}
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a.tag-link {
  color: black;
  background-color: #eee;
  border-radius: 5px;
  padding: 2px;
  font-size: 85%;
  text-decoration: none;
}

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/* ----------------- */
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.data-container, .info-container{
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  z-index:3;
  border:solid; 
  position: fixed; 
  top: 50px; 
  left: 20px + @width_left_container;
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  font-size: 13px; 
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  padding: 10px;
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  background: @background;
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  display:none;
  max-width: -moz-calc(~"100%" - @width_left_container + 60px);
  max-width: -webkit-calc(~"100%" - @width_left_container + 60px);
  max-width: calc(~"100%" - @width_left_container + 60px);
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  height: -moz-calc(~"100%" - 215px);
  height: -webkit-calc(~"100%" - 215px);
  height: calc(~"100%" - 215px);
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}

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.data-msg, .info-msg{
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  overflow-x: auto;
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  height : 100%;
  width : 100%;
}

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#file_menu, #menu, #list_clones, #tagSelector, #display-menu, #bot-container, #segmenter_axis_menu, .seq-fixed{
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 background : @background;
}

.closeButton{
  position: absolute;
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  top: 0px;
  right: 0px;
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  border: solid;
  background: inherit;
  border-radius: 20px;
  width: 15px;
  height: 15px;
  text-align: center;
  font-weight: bolder;
  cursor: pointer;
  padding: 1px;
  font-size: 90%; 
  color: @border;
}

.closeButton:hover{
  color: @select;
}

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.button, .button_right, .button_left{
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  cursor:pointer;
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  font-size: 13px;
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  padding: 0px 3px;
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  margin-right:5px;
  margin-left:5px;
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  min-width : 16px;
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  color: @default;
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}

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div.button {
    display: inline;
}

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.button_next {
    margin-left: -8px ;
}

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.button_right{
    float: right;
}

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.button_left {
    float: left;
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    margin-right: -27px;
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}

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.button2 {
    border: solid;
    border-width: 1px;
    padding: 3px;
    margin: 3px;
    display: inline-block;
    cursor: pointer;
    background: @border;
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    width: auto;
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    text-align: center;
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    padding-left: 10px;
    padding-right: 10px;
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}

.smallbutton {
    cursor:pointer;
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    font-size: 13px;
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    text-decoration:underline;
}

#logo
{
  font-size: 130%;
  font-weight: bold;
  opacity: 1;
  padding: 5px 20px ;
  cursor: pointer;
}

span.logo
{
  font-size: 60% ;
  font-weight: bold;
  vertical-align: super;
  opacity: .8;
  color: #f88;
}

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.bot-bar {
    -khtml-user-select: none;
    -webkit-user-select: none;
    -moz-user-select: -moz-none;
    -ms-user-select: none;
    user-select: none;
    height: 20px;
    border-bottom: solid;
    width: 100%;
    padding-top: 2px;
}

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.menu-segmenter {
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    position: relative;
    float: left;
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    width: @width_left_container +200;
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}

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#toIMGTSeg {
    width: 12px;
    display: inline-block;
    text-align: center;
}

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.menu-highlight {
    position: relative;
    float: left;
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    width: eval(@width_highlight);
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}

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.devel-mode, .beta-mode {
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    display: none;
}

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.focus {
    position: relative;
    text-align: center;
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    float: left;
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    width: -moz-calc(~"100%" - (@width_left_container + @width_stats + @width_highlight + 50));
    width: -webkit-calc(~"100%" - (@width_left_container + @width_stats + @width_highlight + 50));
    width: calc(~"100%" - (@width_left_container +  @width_stats + @width_highlight + 50));
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    overflow: hidden;
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    height: 1.1em;
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}
.stats {
  position: relative;
  text-align: right;
  float: right;
  width: @width_stats - 3px;
  padding-right: 3px;
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