View source for Hg38 17-way Genome size statistics

==see also==

<UL>
<LI>Human 17-way [[Hg38 17-way conservation alignment]]</LI>
<LI>Human 17-way [[Hg38 17-way conservation lastz parameters]]</LI>
<LI>all other [[UCSC Multiple Alignments]]</LI>
</UL>

==statistics collected from UCSC 2bit files==
<UL>
<LI>The external link in the first column goes to the FTP location where the genome sequence was obtained</LI>
<LI>The external links from the UCSC database name go to the UCSC genome-test browser for that genome</LI>
<LI>N bases == unknown bases in the assembly marked by &quot;N&quot;</LI>
<LI>non-N bases == called bases in the assembly</LI>
<LI>total size == all bases in assembly, N and non-N</LI>
<LI>The % masked is masking from Repeat Masker or Window Masker plus TRF/Simple Repeats, whichever is greater, usually WindowMasker for these genomes</LI>
<LI>The common name external links go to information pages for this genome</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>
</UL>

==do not edit, automatically generated table==

<TABLE BORDER=1>
<TR><TH>order<BR>count/<BR>ftp&nbsp;src</TH>
  <TH>ucsc<BR>db&nbsp;name/<BR>genome-test</TH>
  <TH>chrom<BR>count</TH>
  <TH>total<BR>size</TH>
  <TH>non-N<BR>bases</TH>
  <TH>N&nbsp;base<BR>count</TH>
  <TH>%&nbsp;masked</TH>
  <TH>common&nbsp;name/<BR>src&nbsp;info</TH>
  <TH>coverage</TH>
  <TH>N50<BR>chrom.sizes</TH>
  <TH>alignment&nbsp;type</TH>
  <TH>%&nbsp;of&nbsp;hg38<BR>matched<BR>(chainLink&nbsp;table)</TH>
  <TH>chain<BR>minScore</TH>
  <TH>chain<BR>linearGap</TH>
<TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000001405.15/ 01]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=hg38 hg38]</TH>
<TH ALIGN=RIGHT>455</TH>
  <TD ALIGN=RIGHT>3,209,286,105</TD><TD ALIGN=RIGHT>3,049,315,783</TD>
  <TD ALIGN=RIGHT>159,970,322</TD><TD ALIGN=RIGHT>%&nbsp;52.10</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/human/index.shtml Human]</TD><TH ALIGN=CENTER>20X</TH>
<TH ALIGN=CENTER>145138636</TH>
  <TH ALIGN=CENTER>N/A</TH><TD ALIGN=RIGHT>N/A</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/10627 02]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=panTro4 panTro4]</TH>
<TH ALIGN=RIGHT>24,129</TH>
  <TD ALIGN=RIGHT>3,309,577,922</TD><TD ALIGN=RIGHT>2,902,338,967</TD>
  <TD ALIGN=RIGHT>407,238,955</TD><TD ALIGN=RIGHT>%&nbsp;51.29</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AACZ03 Chimp]</TD><TH ALIGN=CENTER>6X</TH>
<TH ALIGN=CENTER>143986469</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>93.112%</TD>
<TD ALIGN=RIGHT>5000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/49285 03]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=panPan1 panPan1]</TH>
<TH ALIGN=RIGHT>10,867</TH>
  <TD ALIGN=RIGHT>2,869,190,071</TD><TD ALIGN=RIGHT>2,725,905,606</TD>
  <TD ALIGN=RIGHT>143,284,465</TD><TD ALIGN=RIGHT>%&nbsp;36.53</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AJFE01 Bonobo]</TD><TH ALIGN=CENTER>26X</TH>
<TH ALIGN=CENTER>10124892</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>92.929%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Gorilla_gorilla/gorGor3.1/ 04]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=gorGor3 gorGor3]</TH>
<TH ALIGN=RIGHT>46,823</TH>
  <TD ALIGN=RIGHT>3,029,553,646</TD><TD ALIGN=RIGHT>2,822,760,080</TD>
  <TD ALIGN=RIGHT>206,793,566</TD><TD ALIGN=RIGHT>%&nbsp;48.80</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=CABD02 Gorilla]</TD><TH ALIGN=CENTER>2.1X</TH>
<TH ALIGN=CENTER>145327772</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>88.005%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/pongo_abelii/ 05]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ponAbe2 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>353,228,224</TD><TD ALIGN=RIGHT>%&nbsp;50.89</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABGA00 Orangutan]</TD><TH ALIGN=CENTER>6X</TH>
<TH ALIGN=CENTER>135191526</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>89.187%</TD>
<TD ALIGN=RIGHT>5000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000146795.3/ 06]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=nomLeu3 nomLeu3]</TH>
<TH ALIGN=RIGHT>17,492</TH>
  <TD ALIGN=RIGHT>2,962,077,449</TD><TD ALIGN=RIGHT>2,756,609,047</TD>
  <TD ALIGN=RIGHT>205,468,402</TD><TD ALIGN=RIGHT>%&nbsp;51.14</TD>
  <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Nomascus_leucogenys/Nleu_3.0/ Gibbon]</TD><TH ALIGN=CENTER>5.6X</TH>
<TH ALIGN=CENTER>117381234</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>86.379%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/PRJNA241312 07]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=nasLar1 nasLar1]</TH>
<TH ALIGN=RIGHT>319,550</TH>
  <TD ALIGN=RIGHT>3,011,982,740</TD><TD ALIGN=RIGHT>2,397,109,760</TD>
  <TD ALIGN=RIGHT>614,872,980</TD><TD ALIGN=RIGHT>%&nbsp;46.33</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=JMHX01 Proboscis monkey]</TD><TH ALIGN=CENTER>290X</TH>
<TH ALIGN=CENTER>137426304</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>74.541%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/PRJNA266995 08]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=rhiRox1 rhiRox1]</TH>
<TH ALIGN=RIGHT>319,549</TH>
  <TD ALIGN=RIGHT>3,011,966,170</TD><TD ALIGN=RIGHT>2,397,093,190</TD>
  <TD ALIGN=RIGHT>614,872,980</TD><TD ALIGN=RIGHT>%&nbsp;46.33</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=JABR01 Golden snub-nosed monkey]</TD><TH ALIGN=CENTER>53.7X</TH>
<TH ALIGN=CENTER>137426304</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>74.547%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/PRJNA168621 09]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=chlSab2 chlSab2]</TH>
<TH ALIGN=RIGHT>2,004</TH>
  <TD ALIGN=RIGHT>2,789,656,328</TD><TD ALIGN=RIGHT>2,752,000,999</TD>
  <TD ALIGN=RIGHT>37,655,329</TD><TD ALIGN=RIGHT>%&nbsp;48.77</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AQIB01 Green monkey]</TD><TH ALIGN=CENTER>95X</TH>
<TH ALIGN=CENTER>101219884</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>84.393%</TD>
<TD ALIGN=RIGHT>5000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000364345.1/ 10]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=macFas5 macFas5]</TH>
<TH ALIGN=RIGHT>7,601</TH>
  <TD ALIGN=RIGHT>2,946,843,737</TD><TD ALIGN=RIGHT>2,803,866,385</TD>
  <TD ALIGN=RIGHT>142,977,352</TD><TD ALIGN=RIGHT>%&nbsp;50.11</TD>
  <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Macaca_fascicularis/Macaca_fascicularis_5.0/ Crab-eating macaque]</TD><TH ALIGN=CENTER>68X</TH>
<TH ALIGN=CENTER>152835861</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>85.675%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/genome/assembly/310688/ 11]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=rheMac3 rheMac3]</TH>
<TH ALIGN=RIGHT>34,103</TH>
  <TD ALIGN=RIGHT>2,969,988,180</TD><TD ALIGN=RIGHT>2,639,145,830</TD>
  <TD ALIGN=RIGHT>330,842,350</TD><TD ALIGN=RIGHT>%&nbsp;48.54</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AEHK01 Rhesus]</TD><TH ALIGN=CENTER>50X</TH>
<TH ALIGN=CENTER>150158102</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>79.729%</TD>
<TD ALIGN=RIGHT>5000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/54005 12]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=papAnu2 papAnu2]</TH>
<TH ALIGN=RIGHT>63,250</TH>
  <TD ALIGN=RIGHT>2,948,380,710</TD><TD ALIGN=RIGHT>2,893,250,291</TD>
  <TD ALIGN=RIGHT>55,130,419</TD><TD ALIGN=RIGHT>%&nbsp;38.95</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AHZZ01 Baboon]</TD><TH ALIGN=CENTER>85X</TH>
<TH ALIGN=CENTER>139646187</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>84.179%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/67945 13]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=saiBol1 saiBol1]</TH>
<TH ALIGN=RIGHT>2,685</TH>
  <TD ALIGN=RIGHT>2,608,572,064</TD><TD ALIGN=RIGHT>2,477,131,095</TD>
  <TD ALIGN=RIGHT>131,440,969</TD><TD ALIGN=RIGHT>%&nbsp;46.69</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AGCE01 Squirrel monkey]</TD><TH ALIGN=CENTER>80X</TH>
<TH ALIGN=CENTER>18744880</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>70.565%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://genome.wustl.edu/genomes/view/callithrix_jacchus/ 14]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=calJac3 calJac3]</TH>
<TH ALIGN=RIGHT>14,205</TH>
  <TD ALIGN=RIGHT>2,914,958,544</TD><TD ALIGN=RIGHT>2,752,505,800</TD>
  <TD ALIGN=RIGHT>162,452,744</TD><TD ALIGN=RIGHT>%&nbsp;47.71</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ACFV00 Marmoset]</TD><TH ALIGN=CENTER>6X</TH>
<TH ALIGN=CENTER>132174527</TH>
  <TH ALIGN=CENTER>SyntenicNet</TH><TD ALIGN=RIGHT>71.709%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/bioproject/PRJNA20339 15]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=tarSyr2 tarSyr2]</TH>
<TH ALIGN=RIGHT>337,189</TH>
  <TD ALIGN=RIGHT>3,453,864,774</TD><TD ALIGN=RIGHT>3,405,755,564</TD>
  <TD ALIGN=RIGHT>48,109,210</TD><TD ALIGN=RIGHT>%&nbsp;47.85</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABRT02 Tarsier]</TD><TH ALIGN=CENTER>48X</TH>
<TH ALIGN=CENTER>401181</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>56.022%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.broadinstitute.org/ftp/pub/assemblies/mammals/mouseLemur/MicMur1.0/ 16]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=micMur1 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>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABDC00 Mouse lemur]</TD><TH ALIGN=CENTER>2X</TH>
<TH ALIGN=CENTER>140884</TH>
  <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>42.653%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
<TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/genome/assembly/249878/ 17]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=otoGar3 otoGar3]</TH>
<TH ALIGN=RIGHT>7,793</TH>
  <TD ALIGN=RIGHT>2,519,724,550</TD><TD ALIGN=RIGHT>2,359,530,453</TD>
  <TD ALIGN=RIGHT>160,194,097</TD><TD ALIGN=RIGHT>%&nbsp;39.51</TD>
  <TD ALIGN=CENTER>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AAQR03 Bushbaby]</TD><TH ALIGN=CENTER>137X</TH>
<TH ALIGN=CENTER>13852661</TH>
  <TH ALIGN=CENTER>RecipBest</TH><TD ALIGN=RIGHT>49.485%</TD>
<TD ALIGN=RIGHT>3000</TD>
  <TD ALIGN=CENTER>medium</TD></TR>
</TABLE>