Hg19 Genome size statistics: Difference between revisions

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<UL>
<UL>
<LI>[[Hg19 conservation alignment]]</LI>
<LI>46-way [[Hg19 conservation alignment]]</LI>
<LI>[[Hg19 conservation lastz parameters]]</LI>
<LI>46-way [[Hg19 conservation lastz parameters]]</LI>
<LI>[[Hg18 44way alignment]]</LI>
<LI>all other [[UCSC Multiple Alignments]]</LI>
<LI>[[Hg18 44way blastz parameters]]</LI>
<LI>[[Genome size statistics|Hg18 genome size statistics]]</LI>
</UL>
</UL>


==statistics collected from UCSC 2bit files==
==statistics collected from UCSC 2bit files==
<UL>
<UL>
<LI>The external links from the UCSC database name go to the sequencing center information pages for this genome</LI>
<LI>N bases == unknown bases in the assembly marked by 'N'</LI>
<LI>N bases == unknown bases in the assembly marked by 'N'</LI>
<LI>non-N bases == called bases in the assembly</LI>
<LI>non-N bases == called bases in the assembly</LI>
<LI>total size == all bases in assembly, N and non-N</LI>
<LI>total size == all bases in assembly, N and non-N</LI>
<LI>The coverage numbers are taken directly from information README files from the sequencing center</LI>
<LI>The N50 size is calculated directly from the UCSC chrom.sizes file which is the size of the chromosomes as seen in the UCSC genome browser</LI>
<LI>% masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats</LI>
<LI>% masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats</LI>
<LI>% of hg19 matched (chainLink table) == featureBits hg19 chain<Db>Link == alignment coverage</LI>
<LI>% of hg19 matched (chainLink table) == featureBits hg19 chain<Db>Link == alignment coverage</LI>
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   <TH>chrom<BR>count</TH>
   <TH>chrom<BR>count</TH>
   <TH>total<BR>size</TH>
   <TH>total<BR>size</TH>
   <TH>non-N<BR>bases</TH>
   <TH>non-N<BR>bases</TH>
   <TH>N&nbsp;base<BR>count</TH>
   <TH>N&nbsp;base<BR>count</TH>
   <TH>%&nbsp;masked</TH>
   <TH>%&nbsp;masked</TH>
   <TH>common&nbsp;name</TH>
   <TH>common&nbsp;name</TH>
  <TH>coverage</TH>
  <TH>N50<BR>chrom.sizes</TH>
  <TH>alignment&nbsp;type</TH>
   <TH>%&nbsp;of&nbsp;hg19<BR>matched<BR>(chainLink&nbsp;table)</TH>
   <TH>%&nbsp;of&nbsp;hg19<BR>matched<BR>(chainLink&nbsp;table)</TH>
   <TH>alignment&nbsp;type</TH>
 
   <TH>chain<BR>minScore</TH>
  <TH>chain<BR>linearGap</TH>
<TR>
<TR>
<TR><TH ALIGN=RIGHT>01</TH><TH ALIGN=RIGHT>hg19</TH><TH ALIGN=RIGHT>93</TH>
<TR><TH ALIGN=RIGHT>01</TH><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/human/data/index.shtml hg19]</TH>
<TH ALIGN=RIGHT>93</TH>
   <TD ALIGN=RIGHT>3,137,161,264</TD><TD ALIGN=RIGHT>2,897,310,462</TD>
   <TD ALIGN=RIGHT>3,137,161,264</TD><TD ALIGN=RIGHT>2,897,310,462</TD>
   <TD ALIGN=RIGHT>239,850,802</TD><TD ALIGN=RIGHT>%&nbsp;50.63</TD>
   <TD ALIGN=RIGHT>239,850,802</TD><TD ALIGN=RIGHT>%&nbsp;50.63</TD>
   <TD ALIGN=CENTER>Human</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Human</TD><TH ALIGN=CENTER>20X</TH>
<TH ALIGN=CENTER>146364022</TH>
  <TH ALIGN=CENTER>N/A</TH><TD ALIGN=RIGHT>N/A</TD>
<TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>02</TH><TH ALIGN=RIGHT>panTro2</TH><TH ALIGN=RIGHT>52</TH>
<TR><TH ALIGN=RIGHT>02</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/pan_troglodytes/ panTro2]</TH>
<TH ALIGN=RIGHT>52</TH>
   <TD ALIGN=RIGHT>3,350,447,512</TD><TD ALIGN=RIGHT>2,909,246,738</TD>
   <TD ALIGN=RIGHT>3,350,447,512</TD><TD ALIGN=RIGHT>2,909,246,738</TD>
   <TD ALIGN=RIGHT>441,200,774</TD><TD ALIGN=RIGHT>%&nbsp;48.90</TD>
   <TD ALIGN=RIGHT>441,200,774</TD><TD ALIGN=RIGHT>%&nbsp;48.90</TD>
   <TD ALIGN=CENTER>Chimp</TD><TD ALIGN=RIGHT>94.846%</TD>
 
   <TD ALIGN=CENTER>SyntenicNet</TD></TR>
   <TD ALIGN=CENTER>Chimp</TD><TH ALIGN=CENTER>6X</TH>
<TR><TH ALIGN=RIGHT>03</TH><TH ALIGN=RIGHT>gorGor1</TH><TH ALIGN=RIGHT>609,861</TH>
<TH ALIGN=CENTER>145085868</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>94.846%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>03</TH><TH ALIGN=RIGHT>[http://www.sanger.ac.uk/Info/Statistics/ gorGor1]</TH>
 
<TH ALIGN=RIGHT>609,861</TH>
   <TD ALIGN=RIGHT>2,323,645,895</TD><TD ALIGN=RIGHT>2,043,974,660</TD>
   <TD ALIGN=RIGHT>2,323,645,895</TD><TD ALIGN=RIGHT>2,043,974,660</TD>
   <TD ALIGN=RIGHT>279,671,235</TD><TD ALIGN=RIGHT>%&nbsp;47.27</TD>
   <TD ALIGN=RIGHT>279,671,235</TD><TD ALIGN=RIGHT>%&nbsp;47.27</TD>
   <TD ALIGN=CENTER>Gorilla</TD><TD ALIGN=RIGHT>59.484%</TD>
   <TD ALIGN=CENTER>Gorilla</TD><TH ALIGN=CENTER>2X</TH>
   <TD ALIGN=CENTER>MafNet</TD></TR>
<TH ALIGN=CENTER>11278</TH>
<TR><TH ALIGN=RIGHT>04</TH><TH ALIGN=RIGHT>ponAbe2</TH><TH ALIGN=RIGHT>55</TH>
 
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>59.484%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>04</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/pongo_abelii/ ponAbe2]</TH>
<TH ALIGN=RIGHT>55</TH>
   <TD ALIGN=RIGHT>3,446,771,396</TD><TD ALIGN=RIGHT>3,093,543,172</TD>
   <TD ALIGN=RIGHT>3,446,771,396</TD><TD ALIGN=RIGHT>3,093,543,172</TD>
   <TD ALIGN=RIGHT>353,228,224</TD><TD ALIGN=RIGHT>%&nbsp;50.89</TD>
   <TD ALIGN=RIGHT>353,228,224</TD><TD ALIGN=RIGHT>%&nbsp;50.89</TD>
   <TD ALIGN=CENTER>Orangutan</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Orangutan</TD><TH ALIGN=CENTER>6X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>135191526</TH>
<TR><TH ALIGN=RIGHT>05</TH><TH ALIGN=RIGHT>rheMac2</TH><TH ALIGN=RIGHT>22</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>91.350%</TD>
<TD ALIGN=RIGHT>5000</TD>
 
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>05</TH><TH ALIGN=RIGHT>[http://www.hgsc.bcm.tmc.edu/project-species-p-Rhesus%20Macaque.hgsc?pageLocation=Rhesus%20Macaque rheMac2]</TH>
<TH ALIGN=RIGHT>22</TH>
   <TD ALIGN=RIGHT>2,864,106,071</TD><TD ALIGN=RIGHT>2,646,668,809</TD>
   <TD ALIGN=RIGHT>2,864,106,071</TD><TD ALIGN=RIGHT>2,646,668,809</TD>
   <TD ALIGN=RIGHT>217,437,262</TD><TD ALIGN=RIGHT>%&nbsp;48.28</TD>
   <TD ALIGN=RIGHT>217,437,262</TD><TD ALIGN=RIGHT>%&nbsp;48.28</TD>
   <TD ALIGN=CENTER>Rhesus</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Rhesus</TD><TH ALIGN=CENTER>5.1X</TH>
<TR><TH ALIGN=RIGHT>06</TH><TH ALIGN=RIGHT>papHam1</TH><TH ALIGN=RIGHT>387,374</TH>
<TH ALIGN=CENTER>153947521</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>82.744%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>06</TH><TH ALIGN=RIGHT>[http://www.hgsc.bcm.tmc.edu/project-species-p-Papio%20hamadryas.hgsc?pageLocation=Papio%20hamadryas papHam1]</TH>
 
<TH ALIGN=RIGHT>387,374</TH>
   <TD ALIGN=RIGHT>2,867,564,654</TD><TD ALIGN=RIGHT>2,741,849,051</TD>
   <TD ALIGN=RIGHT>2,867,564,654</TD><TD ALIGN=RIGHT>2,741,849,051</TD>
   <TD ALIGN=RIGHT>125,715,603</TD><TD ALIGN=RIGHT>%&nbsp;0.00</TD>
   <TD ALIGN=RIGHT>125,715,603</TD><TD ALIGN=RIGHT>%&nbsp;48.70</TD>
   <TD ALIGN=CENTER>Baboon</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Baboon</TD><TH ALIGN=CENTER>5.3X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>88525</TH>
<TR><TH ALIGN=RIGHT>07</TH><TH ALIGN=RIGHT>calJac1</TH><TH ALIGN=RIGHT>49,724</TH>
 
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>82.810%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>07</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/callithrix_jacchus/ calJac1]</TH>
<TH ALIGN=RIGHT>49,724</TH>
   <TD ALIGN=RIGHT>3,029,401,840</TD><TD ALIGN=RIGHT>2,929,124,957</TD>
   <TD ALIGN=RIGHT>3,029,401,840</TD><TD ALIGN=RIGHT>2,929,124,957</TD>
   <TD ALIGN=RIGHT>100,276,883</TD><TD ALIGN=RIGHT>%&nbsp;47.50</TD>
   <TD ALIGN=RIGHT>100,276,883</TD><TD ALIGN=RIGHT>%&nbsp;47.50</TD>
   <TD ALIGN=CENTER>Marmoset</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Marmoset</TD><TH ALIGN=CENTER>6X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>303154</TH>
<TR><TH ALIGN=RIGHT>08</TH><TH ALIGN=RIGHT>otoGar1</TH><TH ALIGN=RIGHT>120,882</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>70.860%</TD>
<TD ALIGN=RIGHT>5000</TD>
 
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>08</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/tarsier/Tarsyr1.0/ tarSyr1]</TH>
<TH ALIGN=RIGHT>656,709</TH>
  <TD ALIGN=RIGHT>3,179,905,132</TD><TD ALIGN=RIGHT>2,768,536,343</TD>
  <TD ALIGN=RIGHT>411,368,789</TD><TD ALIGN=RIGHT>%&nbsp;41.75</TD>
 
  <TD ALIGN=CENTER>Tarsier</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>12214</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>47.830%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>09</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/ftp/pub/assemblies/mammals/mouseLemur/MicMur1.0/ micMur1]</TH>
 
<TH ALIGN=RIGHT>185,042</TH>
  <TD ALIGN=RIGHT>2,902,270,736</TD><TD ALIGN=RIGHT>1,852,394,361</TD>
  <TD ALIGN=RIGHT>1,049,876,375</TD><TD ALIGN=RIGHT>%&nbsp;37.31</TD>
  <TD ALIGN=CENTER>Mouse lemur</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>140884</TH>
 
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>46.519%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>10</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/ftp/pub/assemblies/mammals/bushbaby/otoGar1/ otoGar1]</TH>
<TH ALIGN=RIGHT>120,882</TH>
   <TD ALIGN=RIGHT>3,420,058,864</TD><TD ALIGN=RIGHT>1,969,052,059</TD>
   <TD ALIGN=RIGHT>3,420,058,864</TD><TD ALIGN=RIGHT>1,969,052,059</TD>
   <TD ALIGN=RIGHT>1,451,006,805</TD><TD ALIGN=RIGHT>%&nbsp;34.89</TD>
   <TD ALIGN=RIGHT>1,451,006,805</TD><TD ALIGN=RIGHT>%&nbsp;34.89</TD>
   <TD ALIGN=CENTER>Bushbaby</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Bushbaby</TD><TH ALIGN=CENTER>2X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>139426</TH>
<TR><TH ALIGN=RIGHT>09</TH><TH ALIGN=RIGHT>micMur1</TH><TH ALIGN=RIGHT>185,042</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>43.644%</TD>
   <TD ALIGN=RIGHT>2,902,270,736</TD><TD ALIGN=RIGHT>1,852,394,361</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=RIGHT>1,049,876,375</TD><TD ALIGN=RIGHT>%&nbsp;37.31</TD>
 
   <TD ALIGN=CENTER>Mouse lemur</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>11</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/horse/Equus2/ equCab2]</TH>
<TR><TH ALIGN=RIGHT>10</TH><TH ALIGN=RIGHT>tupBel1</TH><TH ALIGN=RIGHT>150,851</TH>
<TH ALIGN=RIGHT>34</TH>
   <TD ALIGN=RIGHT>2,484,532,062</TD><TD ALIGN=RIGHT>2,428,790,173</TD>
   <TD ALIGN=RIGHT>55,741,889</TD><TD ALIGN=RIGHT>%&nbsp;40.97</TD>
 
   <TD ALIGN=CENTER>Horse</TD><TH ALIGN=CENTER>6.8X</TH>
<TH ALIGN=CENTER>91571448</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>57.050%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>12</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/ftp/pub/assemblies/mammals/treeShrew/tupBel1/ tupBel1]</TH>
 
<TH ALIGN=RIGHT>150,851</TH>
   <TD ALIGN=RIGHT>3,660,774,957</TD><TD ALIGN=RIGHT>2,137,225,476</TD>
   <TD ALIGN=RIGHT>3,660,774,957</TD><TD ALIGN=RIGHT>2,137,225,476</TD>
   <TD ALIGN=RIGHT>1,523,549,481</TD><TD ALIGN=RIGHT>%&nbsp;20.43</TD>
   <TD ALIGN=RIGHT>1,523,549,481</TD><TD ALIGN=RIGHT>%&nbsp;20.43</TD>
   <TD ALIGN=CENTER>TreeShrew</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Tree shrew</TD><TH ALIGN=CENTER>2X</TH>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>127888</TH>
<TR><TH ALIGN=RIGHT>11</TH><TH ALIGN=RIGHT>sorAra1</TH><TH ALIGN=RIGHT>262,057</TH>
 
  <TD ALIGN=RIGHT>2,936,119,008</TD><TD ALIGN=RIGHT>1,832,864,697</TD>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>36.156%</TD>
   <TD ALIGN=RIGHT>1,103,254,311</TD><TD ALIGN=RIGHT>%&nbsp;39.07</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>Shrew</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>13</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/bottlenosedDolphin/Turtru1.0/ turTru1]</TH>
<TR><TH ALIGN=RIGHT>12</TH><TH ALIGN=RIGHT>mm9</TH><TH ALIGN=RIGHT>35</TH>
<TH ALIGN=RIGHT>116,467</TH>
   <TD ALIGN=RIGHT>2,725,765,481</TD><TD ALIGN=RIGHT>2,620,345,972</TD>
   <TD ALIGN=RIGHT>2,519,048,486</TD><TD ALIGN=RIGHT>2,298,444,090</TD>
   <TD ALIGN=RIGHT>105,419,509</TD><TD ALIGN=RIGHT>%&nbsp;44.09</TD>
 
   <TD ALIGN=CENTER>Mouse</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>220,604,396</TD><TD ALIGN=RIGHT>%&nbsp;43.86</TD>
  <TD ALIGN=CENTER>MafNet</TD></TR>
   <TD ALIGN=CENTER>Dolphin</TD><TH ALIGN=CENTER>2X</TH>
<TR><TH ALIGN=RIGHT>13</TH><TH ALIGN=RIGHT>rn4</TH><TH ALIGN=RIGHT>45</TH>
<TH ALIGN=CENTER>166056</TH>
   <TD ALIGN=RIGHT>2,834,127,293</TD><TD ALIGN=RIGHT>2,566,294,765</TD>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>48.398%</TD>
  <TD ALIGN=RIGHT>267,832,528</TD><TD ALIGN=RIGHT>%&nbsp;44.29</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>Rat</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>14</TH><TH ALIGN=RIGHT>speTri1</TH><TH ALIGN=RIGHT>160,889</TH>
<TR><TH ALIGN=RIGHT>14</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/squirrel/speTri1/ speTri1]</TH>
<TH ALIGN=RIGHT>160,889</TH>
   <TD ALIGN=RIGHT>3,488,768,592</TD><TD ALIGN=RIGHT>1,913,367,893</TD>
   <TD ALIGN=RIGHT>3,488,768,592</TD><TD ALIGN=RIGHT>1,913,367,893</TD>
   <TD ALIGN=RIGHT>1,575,400,699</TD><TD ALIGN=RIGHT>%&nbsp;26.90</TD>
   <TD ALIGN=RIGHT>1,575,400,699</TD><TD ALIGN=RIGHT>%&nbsp;26.90</TD>
   <TD ALIGN=CENTER>Squirrel</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Squirrel</TD><TH ALIGN=CENTER>2X</TH>
<TR><TH ALIGN=RIGHT>15</TH><TH ALIGN=RIGHT>cavPor3</TH><TH ALIGN=RIGHT>3,144</TH>
<TH ALIGN=CENTER>97483</TH>
   <TD ALIGN=RIGHT>2,723,219,641</TD><TD ALIGN=RIGHT>2,663,369,733</TD>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>35.713%</TD>
   <TD ALIGN=RIGHT>59,849,908</TD><TD ALIGN=RIGHT>%&nbsp;27.53</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>Guinea Pig</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>15</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/alpaca/VicPac1.0/ vicPac1]</TH>
<TR><TH ALIGN=RIGHT>16</TH><TH ALIGN=RIGHT>oryCun1</TH><TH ALIGN=RIGHT>215,471</TH>
 
   <TD ALIGN=RIGHT>3,464,410,039</TD><TD ALIGN=RIGHT>2,076,044,328</TD>
<TH ALIGN=RIGHT>298,413</TH>
   <TD ALIGN=RIGHT>1,388,365,711</TD><TD ALIGN=RIGHT>%&nbsp;37.44</TD>
   <TD ALIGN=RIGHT>2,962,253,608</TD><TD ALIGN=RIGHT>1,922,910,435</TD>
   <TD ALIGN=CENTER>Rabbit</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>1,039,343,173</TD><TD ALIGN=RIGHT>%&nbsp;32.24</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
  <TD ALIGN=CENTER>Alpaca</TD><TH ALIGN=CENTER>2X</TH>
<TR><TH ALIGN=RIGHT>17</TH><TH ALIGN=RIGHT>ochPri2</TH><TH ALIGN=RIGHT>187,558</TH>
<TH ALIGN=CENTER>230521</TH>
   <TD ALIGN=RIGHT>3,445,784,354</TD><TD ALIGN=RIGHT>1,923,624,051</TD>
 
   <TD ALIGN=RIGHT>1,522,160,303</TD><TD ALIGN=RIGHT>%&nbsp;11.44</TD>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>39.399%</TD>
   <TD ALIGN=CENTER>Pika</TD><TD ALIGN=RIGHT>N/A</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>18</TH><TH ALIGN=RIGHT>eriEur1</TH><TH ALIGN=RIGHT>379,802</TH>
<TR><TH ALIGN=RIGHT>16</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/choloepus_hoffmanni/ choHof1]</TH>
   <TD ALIGN=RIGHT>3,367,787,358</TD><TD ALIGN=RIGHT>2,133,134,836</TD>
<TH ALIGN=RIGHT>481,259</TH>
   <TD ALIGN=RIGHT>1,234,652,522</TD><TD ALIGN=RIGHT>%&nbsp;50.89</TD>
   <TD ALIGN=RIGHT>2,458,927,620</TD><TD ALIGN=RIGHT>2,060,419,685</TD>
   <TD ALIGN=CENTER>Hedgehog</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=RIGHT>398,507,935</TD><TD ALIGN=RIGHT>%&nbsp;35.67</TD>
<TR><TH ALIGN=RIGHT>19</TH><TH ALIGN=RIGHT>felCat3</TH><TH ALIGN=RIGHT>217,790</TH>
  <TD ALIGN=CENTER>Sloth</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>9667</TH>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>34.377%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>17</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/megabat/Ptevap1.0/ pteVam1]</TH>
<TH ALIGN=RIGHT>96,944</TH>
   <TD ALIGN=RIGHT>1,996,076,410</TD><TD ALIGN=RIGHT>1,839,436,660</TD>
   <TD ALIGN=RIGHT>156,639,750</TD><TD ALIGN=RIGHT>%&nbsp;31.75</TD>
 
  <TD ALIGN=CENTER>Megabat</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>124060</TH>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>45.414%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>18</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/science/projects/mammals-models/elephant/elephant loxAfr3]</TH>
 
<TH ALIGN=RIGHT>2,353</TH>
   <TD ALIGN=RIGHT>3,196,760,833</TD><TD ALIGN=RIGHT>3,118,565,340</TD>
   <TD ALIGN=RIGHT>78,195,493</TD><TD ALIGN=RIGHT>%&nbsp;47.63</TD>
   <TD ALIGN=CENTER>Elephant</TD><TH ALIGN=CENTER>7X</TH>
<TH ALIGN=CENTER>46401353</TH>
 
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>46.636%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>19</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/cat/felCat3/ felCat3]</TH>
<TH ALIGN=RIGHT>217,790</TH>
   <TD ALIGN=RIGHT>4,045,535,322</TD><TD ALIGN=RIGHT>1,642,698,377</TD>
   <TD ALIGN=RIGHT>4,045,535,322</TD><TD ALIGN=RIGHT>1,642,698,377</TD>
   <TD ALIGN=RIGHT>2,402,836,945</TD><TD ALIGN=RIGHT>%&nbsp;37.66</TD>
   <TD ALIGN=RIGHT>2,402,836,945</TD><TD ALIGN=RIGHT>%&nbsp;37.66</TD>
   <TD ALIGN=CENTER>Cat</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Cat</TD><TH ALIGN=CENTER>2X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>117081</TH>
<TR><TH ALIGN=RIGHT>20</TH><TH ALIGN=RIGHT>canFam2</TH><TH ALIGN=RIGHT>41</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>35.713%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>20</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/mammals/dog canFam2]</TH>
<TH ALIGN=RIGHT>41</TH>
   <TD ALIGN=RIGHT>2,531,673,953</TD><TD ALIGN=RIGHT>2,384,996,543</TD>
   <TD ALIGN=RIGHT>2,531,673,953</TD><TD ALIGN=RIGHT>2,384,996,543</TD>
   <TD ALIGN=RIGHT>146,677,410</TD><TD ALIGN=RIGHT>%&nbsp;40.63</TD>
   <TD ALIGN=RIGHT>146,677,410</TD><TD ALIGN=RIGHT>%&nbsp;40.63</TD>
   <TD ALIGN=CENTER>Dog</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>in progress</TD></TR>
   <TD ALIGN=CENTER>Dog</TD><TH ALIGN=CENTER>7.6X</TH>
<TR><TH ALIGN=RIGHT>21</TH><TH ALIGN=RIGHT>equCab2</TH><TH ALIGN=RIGHT>34</TH>
<TH ALIGN=CENTER>67211953</TH>
   <TD ALIGN=RIGHT>2,484,532,062</TD><TD ALIGN=RIGHT>2,428,790,173</TD>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>52.879%</TD>
   <TD ALIGN=RIGHT>55,741,889</TD><TD ALIGN=RIGHT>%&nbsp;40.97</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>Horse</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>21</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/armadillo/dasNov2/ dasNov2]</TH>
<TR><TH ALIGN=RIGHT>22</TH><TH ALIGN=RIGHT>vicPac1</TH><TH ALIGN=RIGHT>298,413</TH>
 
  <TD ALIGN=RIGHT>2,962,253,608</TD><TD ALIGN=RIGHT>1,922,910,435</TD>
<TH ALIGN=RIGHT>292,141</TH>
   <TD ALIGN=RIGHT>1,039,343,173</TD><TD ALIGN=RIGHT>%&nbsp;32.24</TD>
   <TD ALIGN=RIGHT>4,813,823,562</TD><TD ALIGN=RIGHT>2,371,493,872</TD>
  <TD ALIGN=CENTER>Alpaca</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>2,442,329,690</TD><TD ALIGN=RIGHT>%&nbsp;37.23</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Armadillo</TD><TH ALIGN=CENTER>2X</TH>
<TR><TH ALIGN=RIGHT>23</TH><TH ALIGN=RIGHT>pteVam1</TH><TH ALIGN=RIGHT>96,944</TH>
<TH ALIGN=CENTER>55360</TH>
   <TD ALIGN=RIGHT>1,996,076,410</TD><TD ALIGN=RIGHT>1,839,436,660</TD>
 
   <TD ALIGN=RIGHT>156,639,750</TD><TD ALIGN=RIGHT>%&nbsp;31.75</TD>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>33.543%</TD>
   <TD ALIGN=CENTER>Megabat</TD><TD ALIGN=RIGHT>N/A</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>24</TH><TH ALIGN=RIGHT>myoLuc1</TH><TH ALIGN=RIGHT>193,323</TH>
<TR><TH ALIGN=RIGHT>22</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/rabbit/oryCun2/ oryCun2]</TH>
<TH ALIGN=RIGHT>3,242</TH>
   <TD ALIGN=RIGHT>2,737,490,501</TD><TD ALIGN=RIGHT>2,604,023,284</TD>
 
   <TD ALIGN=RIGHT>133,467,217</TD><TD ALIGN=RIGHT>%&nbsp;43.74</TD>
   <TD ALIGN=CENTER>Rabbit</TD><TH ALIGN=CENTER>6.51X</TH>
<TH ALIGN=CENTER>111795807</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>44.317%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>23</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/microbat/myoLuc1/ myoLuc1]</TH>
<TH ALIGN=RIGHT>193,323</TH>
   <TD ALIGN=RIGHT>2,850,051,559</TD><TD ALIGN=RIGHT>1,673,855,868</TD>
   <TD ALIGN=RIGHT>2,850,051,559</TD><TD ALIGN=RIGHT>1,673,855,868</TD>
   <TD ALIGN=RIGHT>1,176,195,691</TD><TD ALIGN=RIGHT>%&nbsp;24.90</TD>
   <TD ALIGN=RIGHT>1,176,195,691</TD><TD ALIGN=RIGHT>%&nbsp;24.90</TD>
   <TD ALIGN=CENTER>Microbat</TD><TD ALIGN=RIGHT>N/A</TD>
 
  <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Microbat</TD><TH ALIGN=CENTER>2X</TH>
<TR><TH ALIGN=RIGHT>25</TH><TH ALIGN=RIGHT>turTru1</TH><TH ALIGN=RIGHT>116,467</TH>
<TH ALIGN=CENTER>97555</TH>
   <TD ALIGN=RIGHT>2,519,048,486</TD><TD ALIGN=RIGHT>2,298,444,090</TD>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>33.174%</TD>
  <TD ALIGN=RIGHT>220,604,396</TD><TD ALIGN=RIGHT>%&nbsp;43.86</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>Dolphin</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>24</TH><TH ALIGN=RIGHT>[http://www.hgsc.bcm.tmc.edu/project-species-m-Bovine.hgsc?pageLocation=Bovine bosTau4]</TH>
<TR><TH ALIGN=RIGHT>26</TH><TH ALIGN=RIGHT>bosTau4</TH><TH ALIGN=RIGHT>11,900</TH>  
 
<TH ALIGN=RIGHT>11,900</TH>
   <TD ALIGN=RIGHT>2,917,974,530</TD><TD ALIGN=RIGHT>2,731,813,236</TD>
   <TD ALIGN=RIGHT>2,917,974,530</TD><TD ALIGN=RIGHT>2,731,813,236</TD>
   <TD ALIGN=RIGHT>186,161,294</TD><TD ALIGN=RIGHT>%&nbsp;46.89</TD>
   <TD ALIGN=RIGHT>186,161,294</TD><TD ALIGN=RIGHT>%&nbsp;46.89</TD>
   <TD ALIGN=CENTER>Cow</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Cow</TD><TH ALIGN=CENTER>7.1X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>85358539</TH>
<TR><TH ALIGN=RIGHT>27</TH><TH ALIGN=RIGHT>choHof1</TH><TH ALIGN=RIGHT>481,259</TH>
 
   <TD ALIGN=RIGHT>2,458,927,620</TD><TD ALIGN=RIGHT>2,060,419,685</TD>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>46.506%</TD>
   <TD ALIGN=RIGHT>398,507,935</TD><TD ALIGN=RIGHT>%&nbsp;35.67</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>Sloth</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>25</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/guineaPig/cavPor3/ cavPor3]</TH>
<TR><TH ALIGN=RIGHT>28</TH><TH ALIGN=RIGHT>tarSyr1</TH><TH ALIGN=RIGHT>656,709</TH>
<TH ALIGN=RIGHT>3,144</TH>
   <TD ALIGN=RIGHT>3,179,905,132</TD><TD ALIGN=RIGHT>2,768,536,343</TD>
   <TD ALIGN=RIGHT>2,723,219,641</TD><TD ALIGN=RIGHT>2,663,369,733</TD>
   <TD ALIGN=RIGHT>411,368,789</TD><TD ALIGN=RIGHT>%&nbsp;41.75</TD>
 
   <TD ALIGN=CENTER>Tarsier</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>59,849,908</TD><TD ALIGN=RIGHT>%&nbsp;27.53</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Guinea Pig</TD><TH ALIGN=CENTER>6.76X</TH>
<TR><TH ALIGN=RIGHT>29</TH><TH ALIGN=RIGHT>dipOrd1</TH><TH ALIGN=RIGHT>210,053</TH>
<TH ALIGN=CENTER>27942054</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>43.680%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>26</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/rockHyrax/Procap1.0/ proCap1]</TH>
<TH ALIGN=RIGHT>295,006</TH>
   <TD ALIGN=RIGHT>2,985,258,999</TD><TD ALIGN=RIGHT>2,407,847,681</TD>
   <TD ALIGN=RIGHT>577,411,318</TD><TD ALIGN=RIGHT>%&nbsp;28.11</TD>
 
  <TD ALIGN=CENTER>Rock hyrax</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>24297</TH>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>30.864%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>27</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/kangarooRat/Dipord1.0/ dipOrd1]</TH>
 
<TH ALIGN=RIGHT>210,053</TH>
   <TD ALIGN=RIGHT>2,158,502,098</TD><TD ALIGN=RIGHT>1,844,961,421</TD>
   <TD ALIGN=RIGHT>2,158,502,098</TD><TD ALIGN=RIGHT>1,844,961,421</TD>
   <TD ALIGN=RIGHT>313,540,677</TD><TD ALIGN=RIGHT>%&nbsp;28.28</TD>
   <TD ALIGN=RIGHT>313,540,677</TD><TD ALIGN=RIGHT>%&nbsp;28.28</TD>
   <TD ALIGN=CENTER>Kangaroo rat</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Kangaroo rat</TD><TH ALIGN=CENTER>2X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>36427</TH>
<TR><TH ALIGN=RIGHT>30</TH><TH ALIGN=RIGHT>proCap1</TH><TH ALIGN=RIGHT>295,006</TH>
 
   <TD ALIGN=RIGHT>2,985,258,999</TD><TD ALIGN=RIGHT>2,407,847,681</TD>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>27.161%</TD>
   <TD ALIGN=RIGHT>577,411,318</TD><TD ALIGN=RIGHT>%&nbsp;28.11</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>Rock hyrax</TD><TD ALIGN=RIGHT>N/A</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>28</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/pika/OchPri2.0/ ochPri2]</TH>
<TR><TH ALIGN=RIGHT>31</TH><TH ALIGN=RIGHT>macEug1</TH><TH ALIGN=RIGHT>616,418</TH>
<TH ALIGN=RIGHT>187,558</TH>
  <TD ALIGN=RIGHT>3,445,784,354</TD><TD ALIGN=RIGHT>1,923,624,051</TD>
 
  <TD ALIGN=RIGHT>1,522,160,303</TD><TD ALIGN=RIGHT>%&nbsp;11.44</TD>
   <TD ALIGN=CENTER>Pika</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>88760</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>27.768%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>29</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/hedgehog/eriEur1/ eriEur1]</TH>
<TH ALIGN=RIGHT>379,802</TH>
  <TD ALIGN=RIGHT>3,367,787,358</TD><TD ALIGN=RIGHT>2,133,134,836</TD>
  <TD ALIGN=RIGHT>1,234,652,522</TD><TD ALIGN=RIGHT>%&nbsp;50.89</TD>
 
  <TD ALIGN=CENTER>Hedgehog</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>33565</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>19.362%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>30</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/tenrec/echTel1/ echTel1]</TH>
 
<TH ALIGN=RIGHT>325,491</TH>
  <TD ALIGN=RIGHT>3,823,724,728</TD><TD ALIGN=RIGHT>2,111,581,369</TD>
  <TD ALIGN=RIGHT>1,712,143,359</TD><TD ALIGN=RIGHT>%&nbsp;13.84</TD>
  <TD ALIGN=CENTER>Tenrec</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>48377</TH>
 
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>23.120%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>31</TH><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/mouse/index.shtml mm9]</TH>
<TH ALIGN=RIGHT>35</TH>
  <TD ALIGN=RIGHT>2,725,765,481</TD><TD ALIGN=RIGHT>2,620,345,972</TD>
 
  <TD ALIGN=RIGHT>105,419,509</TD><TD ALIGN=RIGHT>%&nbsp;44.09</TD>
  <TD ALIGN=CENTER>Mouse</TD><TH ALIGN=CENTER>20X</TH>
<TH ALIGN=CENTER>131738871</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>35.299%</TD>
<TD ALIGN=RIGHT>3000</TD>
 
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>32</TH><TH ALIGN=RIGHT>[http://www.hgsc.bcm.tmc.edu/project-species-m-Rat.hgsc?pageLocation=Rat rn4]</TH>
<TH ALIGN=RIGHT>45</TH>
   <TD ALIGN=RIGHT>2,834,127,293</TD><TD ALIGN=RIGHT>2,566,294,765</TD>
   <TD ALIGN=RIGHT>267,832,528</TD><TD ALIGN=RIGHT>%&nbsp;44.29</TD>
 
   <TD ALIGN=CENTER>Rat</TD><TH ALIGN=CENTER>20X</TH>
<TH ALIGN=CENTER>143002779</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>32.879%</TD>
<TD ALIGN=RIGHT>3000</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>33</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/mammals/commonShrew/sorAra1/ sorAra1]</TH>
 
<TH ALIGN=RIGHT>262,057</TH>
  <TD ALIGN=RIGHT>2,936,119,008</TD><TD ALIGN=RIGHT>1,832,864,697</TD>
  <TD ALIGN=RIGHT>1,103,254,311</TD><TD ALIGN=RIGHT>%&nbsp;39.07</TD>
  <TD ALIGN=CENTER>Shrew</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>47941</TH>
 
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>19.760%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>34</TH><TH ALIGN=RIGHT>[ftp://ftp.hgsc.bcm.tmc.edu/pub/data/Meugenii/fasta/Meug20071125/ macEug1]</TH>
<TH ALIGN=RIGHT>616,418</TH>
   <TD ALIGN=RIGHT>2,944,879,106</TD><TD ALIGN=RIGHT>2,541,767,336</TD>
   <TD ALIGN=RIGHT>2,944,879,106</TD><TD ALIGN=RIGHT>2,541,767,336</TD>
   <TD ALIGN=RIGHT>403,111,770</TD><TD ALIGN=RIGHT>%&nbsp;36.24</TD>
   <TD ALIGN=RIGHT>403,111,770</TD><TD ALIGN=RIGHT>%&nbsp;36.24</TD>
   <TD ALIGN=CENTER>Wallaby</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Wallaby</TD><TH ALIGN=CENTER>2X</TH>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>16053</TH>
<TR><TH ALIGN=RIGHT>32</TH><TH ALIGN=RIGHT>dasNov1</TH><TH ALIGN=RIGHT>304,391</TH>
   <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>6.011%</TD>
   <TD ALIGN=RIGHT>3,856,777,364</TD><TD ALIGN=RIGHT>2,146,362,222</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=RIGHT>1,710,415,142</TD><TD ALIGN=RIGHT>%&nbsp;30.94</TD>
 
  <TD ALIGN=CENTER>Armadillo</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>medium</TD></TR>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>35</TH><TH ALIGN=RIGHT>[http://www.broadinstitute.org/mammals/opossum monDom5]</TH>
<TR><TH ALIGN=RIGHT>33</TH><TH ALIGN=RIGHT>echTel1</TH><TH ALIGN=RIGHT>325,491</TH>
<TH ALIGN=RIGHT>11</TH>
  <TD ALIGN=RIGHT>3,823,724,728</TD><TD ALIGN=RIGHT>2,111,581,369</TD>
  <TD ALIGN=RIGHT>1,712,143,359</TD><TD ALIGN=RIGHT>%&nbsp;13.84</TD>
  <TD ALIGN=CENTER>Tenrec</TD><TD ALIGN=RIGHT>N/A</TD>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>34</TH><TH ALIGN=RIGHT>loxAfr2</TH><TH ALIGN=RIGHT>225,378</TH>
  <TD ALIGN=RIGHT>4,170,414,852</TD><TD ALIGN=RIGHT>2,444,975,542</TD>
  <TD ALIGN=RIGHT>1,725,439,310</TD><TD ALIGN=RIGHT>%&nbsp;44.13</TD>
  <TD ALIGN=CENTER>Elephant</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>35</TH><TH ALIGN=RIGHT>dasNov2</TH><TH ALIGN=RIGHT>292,141</TH>
  <TD ALIGN=RIGHT>4,813,823,562</TD><TD ALIGN=RIGHT>2,371,493,872</TD>
  <TD ALIGN=RIGHT>2,442,329,690</TD><TD ALIGN=RIGHT>%&nbsp;37.23</TD>
  <TD ALIGN=CENTER>Armadillo</TD><TD ALIGN=RIGHT>N/A</TD>
  <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>36</TH><TH ALIGN=RIGHT>monDom5</TH><TH ALIGN=RIGHT>11</TH>
   <TD ALIGN=RIGHT>3,605,631,728</TD><TD ALIGN=RIGHT>3,501,660,299</TD>
   <TD ALIGN=RIGHT>3,605,631,728</TD><TD ALIGN=RIGHT>3,501,660,299</TD>
   <TD ALIGN=RIGHT>103,971,429</TD><TD ALIGN=RIGHT>%&nbsp;55.95</TD>
   <TD ALIGN=RIGHT>103,971,429</TD><TD ALIGN=RIGHT>%&nbsp;55.95</TD>
   <TD ALIGN=CENTER>Opossum</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Opossum</TD><TH ALIGN=CENTER>6.8X</TH>
<TR><TH ALIGN=RIGHT>37</TH><TH ALIGN=RIGHT>ornAna1</TH><TH ALIGN=RIGHT>201,523</TH>
<TH ALIGN=CENTER>527952102</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>14.358%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>36</TH><TH ALIGN=RIGHT>[ftp://genome.wustl.edu/pub/organism/Other_Vertebrates/Ornithorhynchus_anatinus/assembly/Ornithorhynchus_anatinus-5.0.1/ ornAna1]</TH>
 
<TH ALIGN=RIGHT>201,523</TH>
   <TD ALIGN=RIGHT>1,996,811,212</TD><TD ALIGN=RIGHT>1,842,235,522</TD>
   <TD ALIGN=RIGHT>1,996,811,212</TD><TD ALIGN=RIGHT>1,842,235,522</TD>
   <TD ALIGN=RIGHT>154,575,690</TD><TD ALIGN=RIGHT>%&nbsp;47.89</TD>
   <TD ALIGN=RIGHT>154,575,690</TD><TD ALIGN=RIGHT>%&nbsp;47.89</TD>
   <TD ALIGN=CENTER>Platypus</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Platypus</TD><TH ALIGN=CENTER>6X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>991605</TH>
<TR><TH ALIGN=RIGHT>38</TH><TH ALIGN=RIGHT>galGal3</TH><TH ALIGN=RIGHT>57</TH>
 
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>7.627%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>37</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/pub/organism/Other_Vertebrates/Gallus_gallus/assembly/Gallus_gallus-3.0/ galGal3]</TH>
<TH ALIGN=RIGHT>57</TH>
   <TD ALIGN=RIGHT>1,100,480,441</TD><TD ALIGN=RIGHT>1,042,583,135</TD>
   <TD ALIGN=RIGHT>1,100,480,441</TD><TD ALIGN=RIGHT>1,042,583,135</TD>
   <TD ALIGN=RIGHT>57,897,306</TD><TD ALIGN=RIGHT>%&nbsp;9.85</TD>
   <TD ALIGN=RIGHT>57,897,306</TD><TD ALIGN=RIGHT>%&nbsp;9.85</TD>
   <TD ALIGN=CENTER>Chicken</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Chicken</TD><TH ALIGN=CENTER>6.6X</TH>
   <TD ALIGN=CENTER>in progress</TD></TR>
<TH ALIGN=CENTER>94230402</TH>
<TR><TH ALIGN=RIGHT>39</TH><TH ALIGN=RIGHT>taeGut1</TH><TH ALIGN=RIGHT>70</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>3.591%</TD>
<TD ALIGN=RIGHT>5000</TD>
 
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>38</TH><TH ALIGN=RIGHT>[http://genome.wustl.edu/pub/organism/Other_Vertebrates/Taeniopygia_guttata/assembly/Taeniopygia_guttata-3.2.4/ taeGut1]</TH>
<TH ALIGN=RIGHT>70</TH>
   <TD ALIGN=RIGHT>1,233,186,341</TD><TD ALIGN=RIGHT>1,222,864,691</TD>
   <TD ALIGN=RIGHT>1,233,186,341</TD><TD ALIGN=RIGHT>1,222,864,691</TD>
   <TD ALIGN=RIGHT>10,321,650</TD><TD ALIGN=RIGHT>%&nbsp;20.42</TD>
   <TD ALIGN=RIGHT>10,321,650</TD><TD ALIGN=RIGHT>%&nbsp;20.42</TD>
   <TD ALIGN=CENTER>Zebra finch</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Zebra finch</TD><TH ALIGN=CENTER>6X</TH>
<TR><TH ALIGN=RIGHT>40</TH><TH ALIGN=RIGHT>anoCar1</TH><TH ALIGN=RIGHT>7,233</TH>
<TH ALIGN=CENTER>73657157</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>3.496%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>39</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/reptiles/lizard/AnoCar1.0/ anoCar1]</TH>
 
<TH ALIGN=RIGHT>7,233</TH>
   <TD ALIGN=RIGHT>1,781,602,899</TD><TD ALIGN=RIGHT>1,741,478,929</TD>
   <TD ALIGN=RIGHT>1,781,602,899</TD><TD ALIGN=RIGHT>1,741,478,929</TD>
   <TD ALIGN=RIGHT>40,123,970</TD><TD ALIGN=RIGHT>%&nbsp;42.56</TD>
   <TD ALIGN=RIGHT>40,123,970</TD><TD ALIGN=RIGHT>%&nbsp;42.56</TD>
   <TD ALIGN=CENTER>Lizard</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Lizard</TD><TH ALIGN=CENTER>6.8X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>2439125</TH>
<TR><TH ALIGN=RIGHT>41</TH><TH ALIGN=RIGHT>xenTro2</TH><TH ALIGN=RIGHT>19,759</TH>  
 
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>3.591%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>40</TH><TH ALIGN=RIGHT>[http://genome.jgi-psf.org/Xentr4/Xentr4.info.html xenTro2]</TH>
<TH ALIGN=RIGHT>19,759</TH>
   <TD ALIGN=RIGHT>1,513,925,492</TD><TD ALIGN=RIGHT>1,359,400,017</TD>
   <TD ALIGN=RIGHT>1,513,925,492</TD><TD ALIGN=RIGHT>1,359,400,017</TD>
   <TD ALIGN=RIGHT>154,525,475</TD><TD ALIGN=RIGHT>%&nbsp;19.65</TD>
   <TD ALIGN=RIGHT>154,525,475</TD><TD ALIGN=RIGHT>%&nbsp;19.65</TD>
   <TD ALIGN=CENTER>X. tropicalis</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>X. tropicalis</TD><TH ALIGN=CENTER>7.65X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>1564123</TH>
<TR><TH ALIGN=RIGHT>42</TH><TH ALIGN=RIGHT>danRer5</TH><TH ALIGN=RIGHT>5,036</TH>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>3.176%</TD>
   <TD ALIGN=RIGHT>1,440,582,308</TD><TD ALIGN=RIGHT>1,435,595,672</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=RIGHT>4,986,636</TD><TD ALIGN=RIGHT>%&nbsp;49.53</TD>
 
  <TD ALIGN=CENTER>Zebrafish</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>41</TH><TH ALIGN=RIGHT>[ftp://ftp.broad.mit.edu/pub/assemblies/fish/stickleback/gasAcu1/ gasAcu1]</TH>
<TR><TH ALIGN=RIGHT>43</TH><TH ALIGN=RIGHT>tetNig1</TH><TH ALIGN=RIGHT>27</TH>
<TH ALIGN=RIGHT>23</TH>
  <TD ALIGN=RIGHT>402,240,326</TD><TD ALIGN=RIGHT>312,394,419</TD>
   <TD ALIGN=RIGHT>463,354,448</TD><TD ALIGN=RIGHT>446,627,861</TD>
  <TD ALIGN=RIGHT>89,845,907</TD><TD ALIGN=RIGHT>%&nbsp;4.34</TD>
   <TD ALIGN=RIGHT>16,726,587</TD><TD ALIGN=RIGHT>%&nbsp;2.58</TD>
  <TD ALIGN=CENTER>Tetraodon</TD><TD ALIGN=RIGHT>N/A</TD>
 
   <TD ALIGN=CENTER>N/A</TD></TR>
   <TD ALIGN=CENTER>Stickleback</TD><TH ALIGN=CENTER>6X</TH>
<TR><TH ALIGN=RIGHT>44</TH><TH ALIGN=RIGHT>fr2</TH><TH ALIGN=RIGHT>2</TH>
<TH ALIGN=CENTER>20083130</TH>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>1.916%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>42</TH><TH ALIGN=RIGHT>[http://genome.jgi-psf.org/Takru4/Takru4.info.html fr2]</TH>
 
<TH ALIGN=RIGHT>2</TH>
   <TD ALIGN=RIGHT>400,525,790</TD><TD ALIGN=RIGHT>351,212,245</TD>
   <TD ALIGN=RIGHT>400,525,790</TD><TD ALIGN=RIGHT>351,212,245</TD>
   <TD ALIGN=RIGHT>49,313,545</TD><TD ALIGN=RIGHT>%&nbsp;19.01</TD>
   <TD ALIGN=RIGHT>49,313,545</TD><TD ALIGN=RIGHT>%&nbsp;19.01</TD>
   <TD ALIGN=CENTER>Fugu</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Fugu</TD><TH ALIGN=CENTER>8.5X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>400509343</TH>
<TR><TH ALIGN=RIGHT>45</TH><TH ALIGN=RIGHT>gasAcu1</TH><TH ALIGN=RIGHT>23</TH>
 
   <TD ALIGN=RIGHT>463,354,448</TD><TD ALIGN=RIGHT>446,627,861</TD>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>1.702%</TD>
   <TD ALIGN=RIGHT>16,726,587</TD><TD ALIGN=RIGHT>%&nbsp;2.58</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>Stickleback</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TR><TH ALIGN=RIGHT>43</TH><TH ALIGN=RIGHT>[http://www.sanger.ac.uk/Projects/D_rerio/Zv8_assembly_information.shtml danRer6]</TH>
<TR><TH ALIGN=RIGHT>46</TH><TH ALIGN=RIGHT>oryLat2</TH><TH ALIGN=RIGHT>7,189</TH>
<TH ALIGN=RIGHT>11,724</TH>
  <TD ALIGN=RIGHT>1,512,402,306</TD><TD ALIGN=RIGHT>1,506,876,822</TD>
 
  <TD ALIGN=RIGHT>5,525,484</TD><TD ALIGN=RIGHT>%&nbsp;51.69</TD>
  <TD ALIGN=CENTER>Zebrafish</TD><TH ALIGN=CENTER>6.5X</TH>
<TH ALIGN=CENTER>50748729</TH>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>3.051%</TD>
<TD ALIGN=RIGHT>5000</TD>
 
  <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>44</TH><TH ALIGN=RIGHT>[http://www.genoscope.cns.fr/spip/Tetraodon-nigroviridis-a-fish-with.html tetNig2]</TH>
<TH ALIGN=RIGHT>27</TH>
   <TD ALIGN=RIGHT>358,618,246</TD><TD ALIGN=RIGHT>302,314,788</TD>
   <TD ALIGN=RIGHT>56,303,458</TD><TD ALIGN=RIGHT>%&nbsp;20.27</TD>
 
   <TD ALIGN=CENTER>Tetraodon</TD><TH ALIGN=CENTER>7.9X</TH>
<TH ALIGN=CENTER>13390619</TH>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>1.712%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>45</TH><TH ALIGN=RIGHT>[http://dolphin.lab.nig.ac.jp/medaka/index.php oryLat2]</TH>
 
<TH ALIGN=RIGHT>7,189</TH>
   <TD ALIGN=RIGHT>869,000,216</TD><TD ALIGN=RIGHT>700,386,597</TD>
   <TD ALIGN=RIGHT>869,000,216</TD><TD ALIGN=RIGHT>700,386,597</TD>
   <TD ALIGN=RIGHT>168,613,619</TD><TD ALIGN=RIGHT>%&nbsp;33.09</TD>
   <TD ALIGN=RIGHT>168,613,619</TD><TD ALIGN=RIGHT>%&nbsp;33.09</TD>
   <TD ALIGN=CENTER>Medaka</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Medaka</TD><TH ALIGN=CENTER>10.6X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>29908082</TH>
<TR><TH ALIGN=RIGHT>47</TH><TH ALIGN=RIGHT>petMar1</TH><TH ALIGN=RIGHT>108,241</TH>
 
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>1.849%</TD>
<TD ALIGN=RIGHT>5000</TD>
   <TD ALIGN=CENTER>loose</TD></TR>
<TR><TH ALIGN=RIGHT>46</TH><TH ALIGN=RIGHT>[ftp://genome.wustl.edu/pub/organism/Other_Vertebrates/Petromyzon_marinus/assembly/Petromyzon_marinus-3.0/ petMar1]</TH>
<TH ALIGN=RIGHT>108,241</TH>
   <TD ALIGN=RIGHT>1,027,258,967</TD><TD ALIGN=RIGHT>831,696,438</TD>
   <TD ALIGN=RIGHT>1,027,258,967</TD><TD ALIGN=RIGHT>831,696,438</TD>
   <TD ALIGN=RIGHT>195,562,529</TD><TD ALIGN=RIGHT>%&nbsp;40.67</TD>
   <TD ALIGN=RIGHT>195,562,529</TD><TD ALIGN=RIGHT>%&nbsp;40.67</TD>
   <TD ALIGN=CENTER>Lamprey</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=CENTER>Lamprey</TD><TH ALIGN=CENTER>5.9X</TH>
   <TD ALIGN=CENTER>N/A</TD></TR>
<TH ALIGN=CENTER>14239</TH>
  <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>1.082%</TD>
<TD ALIGN=RIGHT>5000</TD>
 
   <TD ALIGN=CENTER>loose</TD></TR>
</TABLE>
</TABLE>
[[Category:Comparative Genomics]]
[[Category:Browser Linked]]

Latest revision as of 22:25, 18 May 2011

see also

statistics collected from UCSC 2bit files

  • The external links from the UCSC database name go to the sequencing center information pages for this genome
  • N bases == unknown bases in the assembly marked by 'N'
  • non-N bases == called bases in the assembly
  • total size == all bases in assembly, N and non-N
  • The coverage numbers are taken directly from information README files from the sequencing center
  • The N50 size is calculated directly from the UCSC chrom.sizes file which is the size of the chromosomes as seen in the UCSC genome browser
  • % masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats
  • % of hg19 matched (chainLink table) == featureBits hg19 chain<Db>Link == alignment coverage

do not edit, automatically generated table

order
count		 ucsc
db name		 chrom
count		 total
size		 non-N
bases		 N base
count		 % masked common name coverage N50
chrom.sizes		 alignment type % of hg19
matched
(chainLink table)		 chain
minScore		 chain
linearGap
01hg19 93 3,137,161,2642,897,310,462 239,850,802% 50.63 Human20X 146364022 N/AN/A N/A N/A
02panTro2 52 3,350,447,5122,909,246,738 441,200,774% 48.90 Chimp6X 145085868 SyntenicNet94.846% 5000 medium
03gorGor1 609,861 2,323,645,8952,043,974,660 279,671,235% 47.27 Gorilla2X 11278 RecipBest59.484% 5000 medium
04ponAbe2 55 3,446,771,3963,093,543,172 353,228,224% 50.89 Orangutan6X 135191526 SyntenicNet91.350% 5000 medium
05rheMac2 22 2,864,106,0712,646,668,809 217,437,262% 48.28 Rhesus5.1X 153947521 SyntenicNet82.744% 5000 medium
06papHam1 387,374 2,867,564,6542,741,849,051 125,715,603% 48.70 Baboon5.3X 88525 RecipBest82.810% 5000 medium
07calJac1 49,724 3,029,401,8402,929,124,957 100,276,883% 47.50 Marmoset6X 303154 RecipBest70.860% 5000 medium
08tarSyr1 656,709 3,179,905,1322,768,536,343 411,368,789% 41.75 Tarsier2X 12214 RecipBest47.830% 3000 medium
09micMur1 185,042 2,902,270,7361,852,394,361 1,049,876,375% 37.31 Mouse lemur2X 140884 RecipBest46.519% 3000 medium
10otoGar1 120,882 3,420,058,8641,969,052,059 1,451,006,805% 34.89 Bushbaby2X 139426 RecipBest43.644% 3000 medium
11equCab2 34 2,484,532,0622,428,790,173 55,741,889% 40.97 Horse6.8X 91571448 SyntenicNet57.050% 3000 medium
12tupBel1 150,851 3,660,774,9572,137,225,476 1,523,549,481% 20.43 Tree shrew2X 127888 RecipBest36.156% 3000 medium
13turTru1 116,467 2,519,048,4862,298,444,090 220,604,396% 43.86 Dolphin2X 166056 RecipBest48.398% 3000 medium
14speTri1 160,889 3,488,768,5921,913,367,893 1,575,400,699% 26.90 Squirrel2X 97483 RecipBest35.713% 3000 medium
15vicPac1 298,413 2,962,253,6081,922,910,435 1,039,343,173% 32.24 Alpaca2X 230521 RecipBest39.399% 3000 medium
16choHof1 481,259 2,458,927,6202,060,419,685 398,507,935% 35.67 Sloth2X 9667 RecipBest34.377% 3000 medium
17pteVam1 96,944 1,996,076,4101,839,436,660 156,639,750% 31.75 Megabat2X 124060 RecipBest45.414% 3000 medium
18loxAfr3 2,353 3,196,760,8333,118,565,340 78,195,493% 47.63 Elephant7X 46401353 SyntenicNet46.636% 3000 medium
19felCat3 217,790 4,045,535,3221,642,698,377 2,402,836,945% 37.66 Cat2X 117081 RecipBest35.713% 3000 medium
20canFam2 41 2,531,673,9532,384,996,543 146,677,410% 40.63 Dog7.6X 67211953 SyntenicNet52.879% 3000 medium
21dasNov2 292,141 4,813,823,5622,371,493,872 2,442,329,690% 37.23 Armadillo2X 55360 RecipBest33.543% 3000 medium
22oryCun2 3,242 2,737,490,5012,604,023,284 133,467,217% 43.74 Rabbit6.51X 111795807 SyntenicNet44.317% 3000 medium
23myoLuc1 193,323 2,850,051,5591,673,855,868 1,176,195,691% 24.90 Microbat2X 97555 RecipBest33.174% 3000 medium
24bosTau4 11,900 2,917,974,5302,731,813,236 186,161,294% 46.89 Cow7.1X 85358539 SyntenicNet46.506% 3000 medium
25cavPor3 3,144 2,723,219,6412,663,369,733 59,849,908% 27.53 Guinea Pig6.76X 27942054 SyntenicNet43.680% 3000 medium
26proCap1 295,006 2,985,258,9992,407,847,681 577,411,318% 28.11 Rock hyrax2X 24297 RecipBest30.864% 3000 medium
27dipOrd1 210,053 2,158,502,0981,844,961,421 313,540,677% 28.28 Kangaroo rat2X 36427 RecipBest27.161% 3000 medium
28ochPri2 187,558 3,445,784,3541,923,624,051 1,522,160,303% 11.44 Pika2X 88760 RecipBest27.768% 3000 medium
29eriEur1 379,802 3,367,787,3582,133,134,836 1,234,652,522% 50.89 Hedgehog2X 33565 RecipBest19.362% 3000 medium
30echTel1 325,491 3,823,724,7282,111,581,369 1,712,143,359% 13.84 Tenrec2X 48377 RecipBest23.120% 3000 medium
31mm9 35 2,725,765,4812,620,345,972 105,419,509% 44.09 Mouse20X 131738871 SyntenicNet35.299% 3000 medium
32rn4 45 2,834,127,2932,566,294,765 267,832,528% 44.29 Rat20X 143002779 SyntenicNet32.879% 3000 medium
33sorAra1 262,057 2,936,119,0081,832,864,697 1,103,254,311% 39.07 Shrew2X 47941 RecipBest19.760% 3000 medium
34macEug1 616,418 2,944,879,1062,541,767,336 403,111,770% 36.24 Wallaby2X 16053 RecipBest6.011% 3000 medium
35monDom5 11 3,605,631,7283,501,660,299 103,971,429% 55.95 Opossum6.8X 527952102 SyntenicNet14.358% 5000 loose
36ornAna1 201,523 1,996,811,2121,842,235,522 154,575,690% 47.89 Platypus6X 991605 RecipBest7.627% 5000 loose
37galGal3 57 1,100,480,4411,042,583,135 57,897,306% 9.85 Chicken6.6X 94230402 SyntenicNet3.591% 5000 loose
38taeGut1 70 1,233,186,3411,222,864,691 10,321,650% 20.42 Zebra finch6X 73657157 SyntenicNet3.496% 5000 loose
39anoCar1 7,233 1,781,602,8991,741,478,929 40,123,970% 42.56 Lizard6.8X 2439125 SyntenicNet3.591% 5000 loose
40xenTro2 19,759 1,513,925,4921,359,400,017 154,525,475% 19.65 X. tropicalis7.65X 1564123 Net3.176% 5000 loose
41gasAcu1 23 463,354,448446,627,861 16,726,587% 2.58 Stickleback6X 20083130 Net1.916% 5000 loose
42fr2 2 400,525,790351,212,245 49,313,545% 19.01 Fugu8.5X 400509343 Net1.702% 5000 loose
43danRer6 11,724 1,512,402,3061,506,876,822 5,525,484% 51.69 Zebrafish6.5X 50748729 Net3.051% 5000 loose
44tetNig2 27 358,618,246302,314,788 56,303,458% 20.27 Tetraodon7.9X 13390619 Net1.712% 5000 loose
45oryLat2 7,189 869,000,216700,386,597 168,613,619% 33.09 Medaka10.6X 29908082 Net1.849% 5000 loose
46petMar1 108,241 1,027,258,967831,696,438 195,562,529% 40.67 Lamprey5.9X 14239 Net1.082% 5000 loose
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