<?xml version="1.0"?>
<!DOCTYPE HMM PUBLIC "-//ghmm.org//DOCUMENT ghmm V1.0//EN" "http://ghmm.sourceforge.net/xml/1.0/ghmm.dtd">
<HMM version="1.0" name="example" type="discrete background"> 
  <alphabet id="0">
    <symbol code="0">A</symbol>
    <symbol code="1">C</symbol>
    <symbol code="2">G</symbol>
    <symbol code="3">T</symbol>
  </alphabet>
  <background key="intron_bg" order="0">0.5,0.5,0.0,0.0</background>
  <state id="0" initial="1.0" desc="State 0">
    <discrete id="0">0.25,0.25,0.25,0.25</discrete>
    <!-- optional -->
    <backgroundKey>intron_bg</backgroundKey>
    <!-- optional -->
    <position x="100" y="200"/>
  </state>
  <state id="1" initial="0.0" desc="State 1">
    <!-- fixed is optional -->
    <discrete id="0" fixed="1">0.2,0.2,0.3,0.3</discrete>
    <!-- optional -->
    <position x="300" y="300"/>
  </state>
  <transition source="0" target="0">
    <probability>0.2</probability>
  </transition>
  <transition source="0" target="1">
    <probability>0.8</probability>
  </transition>
  <transition source="1" target="0">
    <probability>0.6</probability>
  </transition>
  <transition source="1" target="1">
    <probability>0.4</probability>
  </transition>
</HMM>
