Mm10 conservation lastz parameters: Difference between revisions

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(updated data)
(fixup default L value)
 
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<TABLE BORDER=0>
<TABLE BORDER=0>
<TR><TD>The default<BR>scoring matrix is:</TD><TD WIDTH=42>&nbsp;</TD>
<TR><TD>The default<BR>scoring matrix is:</TD><TD WIDTH=42>&nbsp;</TD>
<TD>The HoxD55<BR>scoring matrix is:</TD><TD WIDTH=42>&nbsp;</TD><TD>The human-chimp.v2<BR>scoring matrix is:</TD></TR>
<TD>The HoxD55<BR>scoring matrix is:</TD><TD WIDTH=42>&nbsp;</TD><TD>The human-chimp.v2<BR>scoring matrix is:</TD><TD WIDTH=42>&nbsp;</TD><TD>The mouse_rat_2.q<BR>scoring matrix is:</TD></TR>


<TR><TD>
<TR><TD>
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</TABLE>
</TABLE>
O=600 E=150
O=600 E=150
</TD><TD WIDTH=42>&nbsp;</TD><TD><TABLE BORDER=1>
<TR><TH>&nbsp;</TH><TH>A</TH><TH>C</TH><TH>G</TH><TH>T</TH></TR>
<TR><TH>A</TH><TD>100</TD><TD>-139</TD><TD>-54</TD><TD>-170</TD></TR>
<TR><TH>C</TH><TD>-139</TD><TD>95</TD><TD>-83</TD><TD>-54</TD></TR>
<TR><TH>G</TH><TD>-54</TD><TD>-83</TD><TD>95</TD><TD>-139</TD></TR>
<TR><TH>T</TH><TD>-170</TD><TD>-54</TD><TD>-139</TD><TD>100</TD></TR>
</TABLE>
O=600 E=55
</TD>
</TD>
</TR></TABLE>
</TR></TABLE>
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</TR>
</TR>
<TR>
<TR>
   <TH>Rat&nbsp;rn4</TH>
   <TH>Rat&nbsp;rn5</TH>
   <TD>no</TD><TD>0</TD><TD>4500</TD><TD>2200</TD><TD>human_chimp.v2.q</TD>
   <TD>yes</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>mouse_rat_2.q</TD>
   <TD>15000</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>150</TD><TD>2000</TD><TD>600</TD><TD>2</TD>
   <TD>5000</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>55</TD><TD>2000</TD><TD>600</TD><TD>2</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>54.645%</TD>
   <TD>2012-03-26</TD><TD ALIGN=RIGHT>67.353%</TD>
   <TD ALIGN=RIGHT>56.348%</TD></TR>
   <TD ALIGN=RIGHT>70.278%</TD></TR>
<TR>
<TR>
   <TH>Squirrel&nbsp;speTri2</TH>
   <TH>Squirrel&nbsp;speTri2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>34.217%</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>34.217%</TD>
   <TD ALIGN=RIGHT>39.244%</TD></TR>
   <TD ALIGN=RIGHT>39.244%</TD></TR>
<TR>
  <TH>Mouse lemur&nbsp;micMur1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-13</TD><TD ALIGN=RIGHT>26.636%</TD>
  <TD ALIGN=RIGHT>37.574%</TD></TR>
<TR>
<TR>
   <TH>Kangaroo rat&nbsp;dipOrd1</TH>
   <TH>Kangaroo rat&nbsp;dipOrd1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>19.460%</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>19.460%</TD>
   <TD ALIGN=RIGHT>27.512%</TD></TR>
   <TD ALIGN=RIGHT>27.512%</TD></TR>
<TR>
<TR>
   <TH>Squirrel monkey&nbsp;saiBol1</TH>
   <TH>Naked mole rat&nbsp;hetGla2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-14</TD><TD ALIGN=RIGHT>32.753%</TD>
  <TD ALIGN=RIGHT>37.989%</TD></TR>
<TR>
  <TH>Guinea pig&nbsp;cavPor3</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-17</TD><TD ALIGN=RIGHT>28.447%</TD>
  <TD ALIGN=RIGHT>29.115%</TD></TR>
<TR>
  <TH>Rabbit&nbsp;oryCun2</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-17</TD><TD ALIGN=RIGHT>25.248%</TD>
  <TD ALIGN=RIGHT>25.677%</TD></TR>
<TR>
  <TH>Pika&nbsp;ochPri2</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>32.339%</TD>
   <TD>2012-03-24</TD><TD ALIGN=RIGHT>14.542%</TD>
   <TD ALIGN=RIGHT>33.848%</TD></TR>
   <TD ALIGN=RIGHT>19.908%</TD></TR>
<TR>
<TR>
   <TH>Naked mole-rat&nbsp;hetGla1</TH>
   <TH>Tree shrew&nbsp;tupBel1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>32.163%</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>19.766%</TD>
   <TD ALIGN=RIGHT>36.427%</TD></TR>
   <TD ALIGN=RIGHT>25.144%</TD></TR>
<TR>
<TR>
   <TH>Human&nbsp;hg19</TH>
   <TH>Human&nbsp;hg19</TH>
   <TD>yes</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>yes</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>38.226%</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>38.226%</TD>
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<TR>
<TR>
   <TH>Gorilla&nbsp;gorGor3</TH>
   <TH>Gorilla&nbsp;gorGor3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>33.987%</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>33.987%</TD>
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<TR>
<TR>
   <TH>Chimp&nbsp;panTro4</TH>
   <TH>Chimp&nbsp;panTro4</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-10</TD><TD ALIGN=RIGHT>34.674%</TD>
   <TD>2012-03-10</TD><TD ALIGN=RIGHT>34.674%</TD>
   <TD ALIGN=RIGHT>31.924%</TD></TR>
   <TD ALIGN=RIGHT>31.924%</TD></TR>
<TR>
<TR>
   <TH>Gibbon&nbsp;nomLeu1</TH>
   <TH>Gibbon&nbsp;nomLeu2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-08</TD><TD ALIGN=RIGHT>34.132%</TD>
   <TD>2012-04-14</TD><TD ALIGN=RIGHT>34.031%</TD>
   <TD ALIGN=RIGHT>32.372%</TD></TR>
   <TD ALIGN=RIGHT>32.274%</TD></TR>
<TR>
<TR>
   <TH>Orangutan&nbsp;ponAbe2</TH>
   <TH>Orangutan&nbsp;ponAbe2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>34.496%</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>34.496%</TD>
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<TR>
<TR>
   <TH>Tarsier&nbsp;tarSyr1</TH>
   <TH>Tarsier&nbsp;tarSyr1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-12</TD><TD ALIGN=RIGHT>24.560%</TD>
   <TD>2012-03-12</TD><TD ALIGN=RIGHT>24.560%</TD>
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<TR>
<TR>
   <TH>Chinese rhesus&nbsp;rheMac3</TH>
   <TH>Chinese rhesus&nbsp;rheMac3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>33.931%</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>33.931%</TD>
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<TR>
<TR>
   <TH>Baboon&nbsp;papHam1</TH>
   <TH>Baboon&nbsp;papHam1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-10</TD><TD ALIGN=RIGHT>33.577%</TD>
   <TD>2012-03-10</TD><TD ALIGN=RIGHT>33.577%</TD>
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<TR>
<TR>
   <TH>Bushbaby&nbsp;otoGar3</TH>
   <TH>Bushbaby&nbsp;otoGar3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-13</TD><TD ALIGN=RIGHT>29.795%</TD>
   <TD>2012-03-13</TD><TD ALIGN=RIGHT>29.795%</TD>
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<TR>
<TR>
   <TH>Marmoset&nbsp;calJac3</TH>
   <TH>Marmoset&nbsp;calJac3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>32.450%</TD>
   <TD>2012-03-09</TD><TD ALIGN=RIGHT>32.450%</TD>
   <TD ALIGN=RIGHT>31.301%</TD></TR>
   <TD ALIGN=RIGHT>31.301%</TD></TR>
<TR>
  <TH>Mouse lemur&nbsp;micMur1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-13</TD><TD ALIGN=RIGHT>26.636%</TD>
  <TD ALIGN=RIGHT>37.574%</TD></TR>
<TR>
  <TH>Squirrel monkey&nbsp;saiBol1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-09</TD><TD ALIGN=RIGHT>32.339%</TD>
  <TD ALIGN=RIGHT>33.848%</TD></TR>
<TR>
<TR>
   <TH>Horse&nbsp;equCab2</TH>
   <TH>Horse&nbsp;equCab2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>34.415%</TD>
   <TD>2012-03-16</TD><TD ALIGN=RIGHT>34.415%</TD>
   <TD ALIGN=RIGHT>37.138%</TD></TR>
   <TD ALIGN=RIGHT>37.138%</TD></TR>
<TR>
  <TH>Guinea pig&nbsp;cavPor3</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-17</TD><TD ALIGN=RIGHT>28.447%</TD>
  <TD ALIGN=RIGHT>29.115%</TD></TR>
<TR>
<TR>
   <TH>Alpaca&nbsp;vicPac1</TH>
   <TH>Alpaca&nbsp;vicPac1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>22.636%</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>22.636%</TD>
   <TD ALIGN=RIGHT>31.769%</TD></TR>
   <TD ALIGN=RIGHT>31.769%</TD></TR>
<TR>
<TR>
   <TH>Dolphin&nbsp;turTru1</TH>
   <TH>Dolphin&nbsp;turTru2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-17</TD><TD ALIGN=RIGHT>28.761%</TD>
  <TD ALIGN=RIGHT>32.385%</TD></TR>
<TR>
  <TH>Tree shrew&nbsp;tupBel1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>19.766%</TD>
   <TD>2012-04-14</TD><TD ALIGN=RIGHT>30.267%</TD>
   <TD ALIGN=RIGHT>25.144%</TD></TR>
   <TD ALIGN=RIGHT>33.492%</TD></TR>
<TR>
<TR>
   <TH>Pig&nbsp;susScr2</TH>
   <TH>Pig&nbsp;susScr3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>23.248%</TD>
   <TD>2012-04-14</TD><TD ALIGN=RIGHT>25.685%</TD>
   <TD ALIGN=RIGHT>29.422%</TD></TR>
   <TD ALIGN=RIGHT>29.445%</TD></TR>
<TR>
<TR>
   <TH>Rabbit&nbsp;oryCun2</TH>
   <TH>Cow&nbsp;bosTau7</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-17</TD><TD ALIGN=RIGHT>25.248%</TD>
   <TD>2012-03-22</TD><TD ALIGN=RIGHT>26.255%</TD>
   <TD ALIGN=RIGHT>25.677%</TD></TR>
   <TD ALIGN=RIGHT>25.383%</TD></TR>
<TR>
<TR>
   <TH>Sloth&nbsp;choHof1</TH>
   <TH>Sheep&nbsp;oviAri1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>in progress</TD><TD ALIGN=RIGHT>in progress</TD>
   <TD>2012-03-22</TD><TD ALIGN=RIGHT>15.341%</TD>
   <TD ALIGN=RIGHT>N/A</TD></TR>
   <TD ALIGN=RIGHT>31.925%</TD></TR>
<TR>
<TR>
   <TH>Megabat&nbsp;pteVam1</TH>
   <TH>Megabat&nbsp;pteVam1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>27.345%</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>27.345%</TD>
   <TD ALIGN=RIGHT>38.627%</TD></TR>
   <TD ALIGN=RIGHT>38.627%</TD></TR>
<TR>
<TR>
   <TH>Elephant&nbsp;loxAfr3</TH>
   <TH>Microbat&nbsp;myoLuc2</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-22</TD><TD ALIGN=RIGHT>24.363%</TD>
  <TD ALIGN=RIGHT>33.650%</TD></TR>
<TR>
  <TH>Cat&nbsp;felCat5</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>25.823%</TD>
   <TD>2012-04-14</TD><TD ALIGN=RIGHT>29.725%</TD>
   <TD ALIGN=RIGHT>21.616%</TD></TR>
   <TD ALIGN=RIGHT>32.244%</TD></TR>
<TR>
<TR>
   <TH>Cat&nbsp;felCat4</TH>
   <TH>Dog&nbsp;canFam3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>24.033%</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>29.144%</TD>
   <TD ALIGN=RIGHT>30.953%</TD></TR>
   <TD ALIGN=RIGHT>31.624%</TD></TR>
<TR>
<TR>
   <TH>Panda&nbsp;ailMel1</TH>
   <TH>Panda&nbsp;ailMel1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>30.979%</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>30.979%</TD>
   <TD ALIGN=RIGHT>35.562%</TD></TR>
   <TD ALIGN=RIGHT>35.562%</TD></TR>
<TR>
<TR>
   <TH>Dog&nbsp;canFam3</TH>
   <TH>Hedgehog&nbsp;eriEur1</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>2200</TD><TD>default</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-24</TD><TD ALIGN=RIGHT>9.856%</TD>
  <TD ALIGN=RIGHT>12.264%</TD></TR>
<TR>
  <TH>Shrew&nbsp;sorAra1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-24</TD><TD ALIGN=RIGHT>9.382%</TD>
  <TD ALIGN=RIGHT>13.569%</TD></TR>
<TR>
  <TH>Sloth&nbsp;choHof1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-22</TD><TD ALIGN=RIGHT>18.019%</TD>
  <TD ALIGN=RIGHT>23.687%</TD></TR>
<TR>
  <TH>Armadillo&nbsp;dasNov3</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TD>2012-03-20</TD><TD ALIGN=RIGHT>29.144%</TD>
   <TD>2012-04-14</TD><TD ALIGN=RIGHT>25.201%</TD>
   <TD ALIGN=RIGHT>31.624%</TD></TR>
   <TD ALIGN=RIGHT>21.066%</TD></TR>
<TR>
<TR>
  <TH>Armadillo&nbsp;dasNov2</TH>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
  <TH>Microbat&nbsp;myoLuc2</TH>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
  <TH>Cow&nbsp;bosTau7</TH>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
  <TH>Sheep&nbsp;oviAri1</TH>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
   <TH>Rock hyrax&nbsp;proCap1</TH>
   <TH>Rock hyrax&nbsp;proCap1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
</TR><TR>
   <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TH>Pika&nbsp;ochPri2</TH>
   <TD>2012-03-23</TD><TD ALIGN=RIGHT>15.147%</TD>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD ALIGN=RIGHT>16.214%</TD></TR>
</TR><TR>
<TR>
   <TH>Hedgehog&nbsp;eriEur1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
   <TH>Tenrec&nbsp;echTel1</TH>
   <TH>Tenrec&nbsp;echTel1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
</TR><TR>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TH>Shrew&nbsp;sorAra1</TH>
  <TD>2012-03-24</TD><TD ALIGN=RIGHT>10.947%</TD>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
  <TD ALIGN=RIGHT>14.117%</TD></TR>
</TR><TR>
<TR>
  <TH>Manatee&nbsp;triMan1</TH>
  <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-30</TD><TD ALIGN=RIGHT>26.546%</TD>
  <TD ALIGN=RIGHT>24.649%</TD></TR>
<TR>
   <TH>Elephant&nbsp;loxAfr3</TH>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-20</TD><TD ALIGN=RIGHT>25.823%</TD>
  <TD ALIGN=RIGHT>21.616%</TD></TR>
<TR>
   <TH>Wallaby&nbsp;macEug2</TH>
   <TH>Wallaby&nbsp;macEug2</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
</TR><TR>
  <TD>9400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-24</TD><TD ALIGN=RIGHT>4.353%</TD>
  <TD ALIGN=RIGHT>4.448%</TD></TR>
<TR>
  <TH>Tasmanian devil&nbsp;sarHar1</TH>
  <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-30</TD><TD ALIGN=RIGHT>8.479%</TD>
  <TD ALIGN=RIGHT>7.888%</TD></TR>
<TR>
   <TH>Opossum&nbsp;monDom5</TH>
   <TH>Opossum&nbsp;monDom5</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
   <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TH>Tasmanian devil&nbsp;sarHar1</TH>
   <TD>2012-03-30</TD><TD ALIGN=RIGHT>9.584%</TD>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD ALIGN=RIGHT>7.205%</TD></TR>
</TR><TR>
<TR>
  <TH>N/A&nbsp;ailMis1</TH>
  <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
   <TH>N/A&nbsp;croPor1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
</TR><TR>
   <TH>Platypus&nbsp;ornAna1</TH>
   <TH>Platypus&nbsp;ornAna1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-30</TD><TD ALIGN=RIGHT>5.348%</TD>
  <TD ALIGN=RIGHT>7.334%</TD></TR>
<TR>
   <TH>Chicken&nbsp;galGal4</TH>
   <TH>Chicken&nbsp;galGal4</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>3.676%</TD>
  <TD ALIGN=RIGHT>8.100%</TD></TR>
<TR>
   <TH>Zebra finch&nbsp;taeGut1</TH>
   <TH>Zebra finch&nbsp;taeGut1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>3.599%</TD>
  <TD ALIGN=RIGHT>7.304%</TD></TR>
<TR>
   <TH>Turkey&nbsp;melGal1</TH>
   <TH>Turkey&nbsp;melGal1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TH>N/A&nbsp;chrPic1</TH>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>3.511%</TD>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
  <TD ALIGN=RIGHT>8.211%</TD></TR>
</TR><TR>
<TR>
   <TH>Budgerigar&nbsp;melUnd1</TH>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-30</TD><TD ALIGN=RIGHT>3.589%</TD>
  <TD ALIGN=RIGHT>7.350%</TD></TR>
<TR>
   <TH>Lizard&nbsp;anoCar2</TH>
   <TH>Lizard&nbsp;anoCar2</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>3.331%</TD>
  <TD ALIGN=RIGHT>4.988%</TD></TR>
<TR>
  <TH>Painted turtle&nbsp;chrPic1</TH>
  <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-03-30</TD><TD ALIGN=RIGHT>4.731%</TD>
  <TD ALIGN=RIGHT>5.488%</TD></TR>
<TR>
   <TH>X. tropicalis&nbsp;xenTro3</TH>
   <TH>X. tropicalis&nbsp;xenTro3</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>3.125%</TD>
  <TD ALIGN=RIGHT>6.651%</TD></TR>
<TR>
   <TH>Coelacanth&nbsp;latCha1</TH>
   <TH>Coelacanth&nbsp;latCha1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>2.715%</TD>
  <TD ALIGN=RIGHT>3.380%</TD></TR>
<TR>
   <TH>Atlantic cod&nbsp;gadMor1</TH>
   <TH>Atlantic cod&nbsp;gadMor1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
   <TH>Nile tilapia&nbsp;oreNil1</TH>
   <TD>2012-04-03</TD><TD ALIGN=RIGHT>1.726%</TD>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD ALIGN=RIGHT>6.810%</TD></TR>
</TR><TR>
<TR>
   <TH>Stickleback&nbsp;gasAcu1</TH>
   <TH>Stickleback&nbsp;gasAcu1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>2.016%</TD>
  <TD ALIGN=RIGHT>10.927%</TD></TR>
<TR>
   <TH>Fugu&nbsp;fr3</TH>
   <TH>Fugu&nbsp;fr3</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>1.789%</TD>
  <TD ALIGN=RIGHT>12.134%</TD></TR>
<TR>
  <TH>Nile tilapia&nbsp;oreNil2</TH>
  <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-11</TD><TD ALIGN=RIGHT>1.957%</TD>
  <TD ALIGN=RIGHT>6.091%</TD></TR>
<TR>
   <TH>Tetraodon&nbsp;tetNig2</TH>
   <TH>Tetraodon&nbsp;tetNig2</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-02</TD><TD ALIGN=RIGHT>1.735%</TD>
  <TD ALIGN=RIGHT>13.642%</TD></TR>
<TR>
   <TH>Zebrafish&nbsp;danRer7</TH>
   <TH>Zebrafish&nbsp;danRer7</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>2.602%</TD>
  <TD ALIGN=RIGHT>5.107%</TD></TR>
<TR>
   <TH>Medaka&nbsp;oryLat2</TH>
   <TH>Medaka&nbsp;oryLat2</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR><TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-03</TD><TD ALIGN=RIGHT>1.936%</TD>
  <TD ALIGN=RIGHT>6.561%</TD></TR>
<TR>
   <TH>Lamprey&nbsp;petMar1</TH>
   <TH>Lamprey&nbsp;petMar1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>0</TD><TD>2200</TD><TD>6000</TD><TD>HoxD55.q</TD>
</TR>
  <TD>3400</TD><TD>lastz-distrib-1.03.02/bin/lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD>
  <TD>2012-04-04</TD><TD ALIGN=RIGHT>1.101%</TD>
  <TD ALIGN=RIGHT>3.159%</TD></TR>
</TABLE>
</TABLE>

Latest revision as of 21:15, 15 August 2012

See Also


The default
scoring matrix is:
  The HoxD55
scoring matrix is:
 The human-chimp.v2
scoring matrix is:
 The mouse_rat_2.q
scoring matrix is:
 ACGT
A91-114-31-123
C-114100-125-31
G-31-125100-114
T-123-31-11491

O=400 E=30

 
 ACGT
A91-90-25-100
C-90100-100-25
G-25-100100-90
T-100-25-9091

O=400 E=30

 
 ACGT
A90-330-236-356
C-330100-318-236
G-236-318100-330
T-356-236-33090

O=600 E=150

 
 ACGT
A100-139-54-170
C-13995-83-54
G-54-8395-139
T-170-54-139100

O=600 E=55

do not edit, automatically generated table

query abridged
repeats(no)
M(0)K(3000) L(3000)QY(9400) program
run
E(30)H(0) O(400)T(1) chain table
date
% of mm10
matched
(chainLink table)
% of query
matched
(chainLinkMm10)
Rat rn5 yes030003000mouse_rat_2.q 5000lastz-distrib-1.03.02/bin/lastz5520006002 2012-03-2667.353% 70.278%
Squirrel speTri2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1634.217% 39.244%
Kangaroo rat dipOrd1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1619.460% 27.512%
Naked mole rat hetGla2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1432.753% 37.989%
Guinea pig cavPor3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1728.447% 29.115%
Rabbit oryCun2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1725.248% 25.677%
Pika ochPri2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2414.542% 19.908%
Tree shrew tupBel1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1719.766% 25.144%
Human hg19 yes030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0838.226% 35.249%
Gorilla gorGor3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0833.987% 34.349%
Chimp panTro4 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1034.674% 31.924%
Gibbon nomLeu2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1434.031% 32.274%
Orangutan ponAbe2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0934.496% 30.610%
Tarsier tarSyr1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1224.560% 24.986%
Chinese rhesus rheMac3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0933.931% 33.464%
Baboon papHam1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1033.577% 32.023%
Bushbaby otoGar3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1329.795% 32.926%
Marmoset calJac3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0932.450% 31.301%
Mouse lemur micMur1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1326.636% 37.574%
Squirrel monkey saiBol1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-0932.339% 33.848%
Horse equCab2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1634.415% 37.138%
Alpaca vicPac1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-1722.636% 31.769%
Dolphin turTru2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1430.267% 33.492%
Pig susScr3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1425.685% 29.445%
Cow bosTau7 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2226.255% 25.383%
Sheep oviAri1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2215.341% 31.925%
Megabat pteVam1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2027.345% 38.627%
Microbat myoLuc2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2224.363% 33.650%
Cat felCat5 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1429.725% 32.244%
Dog canFam3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2029.144% 31.624%
Panda ailMel1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2030.979% 35.562%
Hedgehog eriEur1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-249.856% 12.264%
Shrew sorAra1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-249.382% 13.569%
Sloth choHof1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2218.019% 23.687%
Armadillo dasNov3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-1425.201% 21.066%
Rock hyrax proCap1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2315.147% 16.214%
Tenrec echTel1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2410.947% 14.117%
Manatee triMan1 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-3026.546% 24.649%
Elephant loxAfr3 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-2025.823% 21.616%
Wallaby macEug2 no030003000default 9400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-244.353% 4.448%
Tasmanian devil sarHar1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-308.479% 7.888%
Opossum monDom5 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-309.584% 7.205%
Platypus ornAna1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-305.348% 7.334%
Chicken galGal4 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-033.676% 8.100%
Zebra finch taeGut1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-033.599% 7.304%
Turkey melGal1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-033.511% 8.211%
Budgerigar melUnd1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-303.589% 7.350%
Lizard anoCar2 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-033.331% 4.988%
Painted turtle chrPic1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-03-304.731% 5.488%
X. tropicalis xenTro3 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-033.125% 6.651%
Coelacanth latCha1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-032.715% 3.380%
Atlantic cod gadMor1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-031.726% 6.810%
Stickleback gasAcu1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-032.016% 10.927%
Fugu fr3 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-031.789% 12.134%
Nile tilapia oreNil2 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-111.957% 6.091%
Tetraodon tetNig2 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-021.735% 13.642%
Zebrafish danRer7 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-032.602% 5.107%
Medaka oryLat2 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-031.936% 6.561%
Lamprey petMar1 no022006000HoxD55.q 3400lastz-distrib-1.03.02/bin/lastz3020004001 2012-04-041.101% 3.159%