Genome size statistics: Difference between revisions
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==see also== | |||
<UL> | |||
<LI>Human 44-way [[Hg18 44way alignment|Hg18 conservation alignment]]</LI> | |||
<LI>Human 44-way [[Hg18 44way blastz parameters|Hg18 conservation blastz parameters]]</LI> | |||
<LI>all other [[UCSC Multiple Alignments]]</LI> | |||
</UL> | |||
==statistics collected from UCSC 2bit files== | ==statistics collected from UCSC 2bit files== | ||
<UL> | <UL> | ||
<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>total size == all bases in assembly, N and non-N</LI> | ||
<LI>% masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats</LI> | |||
<LI>% of hg18 matched (chainLink table) == featureBits hg18 chain<Db>Link == alignment coverage</LI> | |||
</UL> | </UL> | ||
==do not edit, automatically generated table== | |||
<TABLE BORDER=1> | <TABLE BORDER=1> | ||
<TR><TH>order<BR>count</TH> | <TR><TH>order<BR>count</TH> | ||
| Line 11: | Line 22: | ||
<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 base<BR>count</TH> | <TH>N base<BR>count</TH> | ||
<TH>% masked</TH> | <TH>% masked</TH> | ||
<TH>common name</TH> | <TH>common name</TH> | ||
<TH>% of hg18<BR>matched<BR>(chainLink table)</TH> | |||
<TH>alignment type</TH> | |||
<TH>chain<BR>minScore</TH> | |||
<TH>chain<BR>linearGap</TH> | |||
<TR> | <TR> | ||
<TR> | <TR><TH ALIGN=RIGHT>01</TH><TH ALIGN=RIGHT>hg18</TH><TH ALIGN=RIGHT>49</TH> | ||
<TD ALIGN=RIGHT>3,107,677,273</TD><TD ALIGN=RIGHT>2,881,421,696</TD> | <TD ALIGN=RIGHT>3,107,677,273</TD><TD ALIGN=RIGHT>2,881,421,696</TD> | ||
<TD ALIGN=RIGHT>226,255,577</TD><TD ALIGN=RIGHT>% 48.85</TD> | <TD ALIGN=RIGHT>226,255,577</TD><TD ALIGN=RIGHT>% 48.85</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Human</TD><TD ALIGN=RIGHT>N/A</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>N/A</TD><TD ALIGN=RIGHT>10000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>02</TH><TH ALIGN=RIGHT>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>% 48.90</TD> | <TD ALIGN=RIGHT>441,200,774</TD><TD ALIGN=RIGHT>% 48.90</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Chimp</TD><TD ALIGN=RIGHT>94.888%</TD> | ||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TD ALIGN=CENTER>unknown</TD></TR> | |||
<TR><TH ALIGN=RIGHT>03</TH><TH ALIGN=RIGHT>gorGor1</TH><TH ALIGN=RIGHT>609,861</TH> | |||
<TD ALIGN=CENTER | <TD ALIGN=RIGHT>2,323,645,895</TD><TD ALIGN=RIGHT>2,043,974,660</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=RIGHT>279,671,235</TD><TD ALIGN=RIGHT>% 47.27</TD> | ||
<TD ALIGN=CENTER>Gorilla</TD><TD ALIGN=RIGHT>61.731%</TD> | |||
<TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>04</TH><TH ALIGN=RIGHT>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>% 50.89</TD> | <TD ALIGN=RIGHT>353,228,224</TD><TD ALIGN=RIGHT>% 50.89</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Orangutan</TD><TD ALIGN=RIGHT>92.892%</TD> | ||
</TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>05</TH><TH ALIGN=RIGHT>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>% 48.28</TD> | <TD ALIGN=RIGHT>217,437,262</TD><TD ALIGN=RIGHT>% 48.28</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Rhesus</TD><TD ALIGN=RIGHT>85.552%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TD ALIGN=CENTER>unknown</TD></TR> | |||
<TR><TH ALIGN=RIGHT>06</TH><TH ALIGN=RIGHT>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>% 47.50</TD> | <TD ALIGN=RIGHT>100,276,883</TD><TD ALIGN=RIGHT>% 47.50</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Marmoset</TD><TD ALIGN=RIGHT>78.351%</TD> | ||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>07</TH><TH ALIGN=RIGHT>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>3,179,905,132</TD><TD ALIGN=RIGHT>2,768,536,343</TD> | ||
<TD ALIGN=RIGHT>411,368,789</TD><TD ALIGN=RIGHT>% 41.75</TD> | <TD ALIGN=RIGHT>411,368,789</TD><TD ALIGN=RIGHT>% 41.75</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Tarsier</TD><TD ALIGN=RIGHT>47.999%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | <TD ALIGN=CENTER>medium</TD></TR> | ||
<TR><TH ALIGN=RIGHT>08</TH><TH ALIGN=RIGHT>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>% 34.89</TD> | <TD ALIGN=RIGHT>1,451,006,805</TD><TD ALIGN=RIGHT>% 34.89</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Bushbaby</TD><TD ALIGN=RIGHT>44.638%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>09</TH><TH ALIGN=RIGHT>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>2,902,270,736</TD><TD ALIGN=RIGHT>1,852,394,361</TD> | ||
<TD ALIGN=RIGHT>1,049,876,375</TD><TD ALIGN=RIGHT>% 37.31</TD> | <TD ALIGN=RIGHT>1,049,876,375</TD><TD ALIGN=RIGHT>% 37.31</TD> | ||
<TD ALIGN= | <TD ALIGN=CENTER>Mouse lemur</TD><TD ALIGN=RIGHT>46.445%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>10</TH><TH ALIGN=RIGHT>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>% 20.43</TD> | <TD ALIGN=RIGHT>1,523,549,481</TD><TD ALIGN=RIGHT>% 20.43</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>TreeShrew</TD><TD ALIGN=RIGHT>37.348%</TD> | ||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>11</TH><TH ALIGN=RIGHT>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>2,725,765,481</TD><TD ALIGN=RIGHT>2,620,345,972</TD> | ||
<TD ALIGN=RIGHT>105,419,509</TD><TD ALIGN=RIGHT>% 44.09</TD> | <TD ALIGN=RIGHT>105,419,509</TD><TD ALIGN=RIGHT>% 44.09</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Mouse</TD><TD ALIGN=RIGHT>35.201%</TD> | ||
</TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | <TD ALIGN=CENTER>medium</TD></TR> | ||
<TR><TH ALIGN=RIGHT>12</TH><TH ALIGN=RIGHT>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>2,834,127,293</TD><TD ALIGN=RIGHT>2,566,294,765</TD> | ||
<TD ALIGN=RIGHT>267,832,528</TD><TD ALIGN=RIGHT>% 44.29</TD> | <TD ALIGN=RIGHT>267,832,528</TD><TD ALIGN=RIGHT>% 44.29</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Rat</TD><TD ALIGN=RIGHT>32.893%</TD> | ||
</TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>13</TH><TH ALIGN=RIGHT>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>% 28.28</TD> | <TD ALIGN=RIGHT>313,540,677</TD><TD ALIGN=RIGHT>% 28.28</TD> | ||
<TD ALIGN= | <TD ALIGN=CENTER>Kangaroo rat</TD><TD ALIGN=RIGHT>27.282%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>14</TH><TH ALIGN=RIGHT>cavPor3</TH><TH ALIGN=RIGHT>3,144</TH> | |||
<TD ALIGN=RIGHT>2,723,219,641</TD><TD ALIGN=RIGHT>2,663,369,733</TD> | <TD ALIGN=RIGHT>2,723,219,641</TD><TD ALIGN=RIGHT>2,663,369,733</TD> | ||
<TD ALIGN=RIGHT>59,849,908</TD><TD ALIGN=RIGHT>% 27.53</TD> | <TD ALIGN=RIGHT>59,849,908</TD><TD ALIGN=RIGHT>% 27.53</TD> | ||
<TD ALIGN= | |||
</TR> | <TD ALIGN=CENTER>Guinea Pig</TD><TD ALIGN=RIGHT>43.971%</TD> | ||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>15</TH><TH ALIGN=RIGHT>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>% 26.90</TD> | <TD ALIGN=RIGHT>1,575,400,699</TD><TD ALIGN=RIGHT>% 26.90</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Squirrel</TD><TD ALIGN=RIGHT>35.828%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | <TD ALIGN=CENTER>medium</TD></TR> | ||
<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> | <TD ALIGN=RIGHT>3,464,410,039</TD><TD ALIGN=RIGHT>2,076,044,328</TD> | ||
<TD ALIGN=RIGHT>1,388,365,711</TD><TD ALIGN=RIGHT>% 37.44</TD> | <TD ALIGN=RIGHT>1,388,365,711</TD><TD ALIGN=RIGHT>% 37.44</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Rabbit</TD><TD ALIGN=RIGHT>34.015%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>17</TH><TH ALIGN=RIGHT>ochPri2</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>3,445,784,354</TD><TD ALIGN=RIGHT>1,923,624,051</TD> | ||
<TD ALIGN=RIGHT>1,522,160,303</TD><TD ALIGN=RIGHT>% 11.44</TD> | <TD ALIGN=RIGHT>1,522,160,303</TD><TD ALIGN=RIGHT>% 11.44</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Pika</TD><TD ALIGN=RIGHT>27.974%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>18</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=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>% 39.07</TD> | <TD ALIGN=RIGHT>1,103,254,311</TD><TD ALIGN=RIGHT>% 39.07</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Shrew</TD><TD ALIGN=RIGHT>20.056%</TD> | ||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>19</TH><TH ALIGN=RIGHT>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>3,367,787,358</TD><TD ALIGN=RIGHT>2,133,134,836</TD> | ||
<TD ALIGN=RIGHT>1,234,652,522</TD><TD ALIGN=RIGHT>% 50.89</TD> | <TD ALIGN=RIGHT>1,234,652,522</TD><TD ALIGN=RIGHT>% 50.89</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Hedgehog</TD><TD ALIGN=RIGHT>19.622%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | <TD ALIGN=CENTER>medium</TD></TR> | ||
<TR><TH ALIGN=RIGHT>20</TH><TH ALIGN=RIGHT>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>% 37.66</TD> | <TD ALIGN=RIGHT>2,402,836,945</TD><TD ALIGN=RIGHT>% 37.66</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Cat</TD><TD ALIGN=RIGHT>35.888%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>21</TH><TH ALIGN=RIGHT>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>% 40.63</TD> | <TD ALIGN=RIGHT>146,677,410</TD><TD ALIGN=RIGHT>% 40.63</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Dog</TD><TD ALIGN=RIGHT>52.915%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>22</TH><TH ALIGN=RIGHT>equCab2</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>2,484,532,062</TD><TD ALIGN=RIGHT>2,428,790,173</TD> | ||
<TD ALIGN=RIGHT>55,741,889</TD><TD ALIGN=RIGHT>% 40.97</TD> | <TD ALIGN=RIGHT>55,741,889</TD><TD ALIGN=RIGHT>% 40.97</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Horse</TD><TD ALIGN=RIGHT>57.162%</TD> | ||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>23</TH><TH ALIGN=RIGHT>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>1,996,076,410</TD><TD ALIGN=RIGHT>1,839,436,660</TD> | ||
<TD ALIGN=RIGHT>156,639,750</TD><TD ALIGN=RIGHT>% 31.75</TD> | <TD ALIGN=RIGHT>156,639,750</TD><TD ALIGN=RIGHT>% 31.75</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Megabat</TD><TD ALIGN=RIGHT>45.502%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</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> | |||
<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>% 24.90</TD> | <TD ALIGN=RIGHT>1,176,195,691</TD><TD ALIGN=RIGHT>% 24.90</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Microbat</TD><TD ALIGN=RIGHT>33.044%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>25</TH><TH ALIGN=RIGHT>turTru1</TH><TH ALIGN=RIGHT>116,467</TH> | |||
<TD ALIGN=RIGHT>2,519,048,486</TD><TD ALIGN=RIGHT>2,298,444,090</TD> | <TD ALIGN=RIGHT>2,519,048,486</TD><TD ALIGN=RIGHT>2,298,444,090</TD> | ||
<TD ALIGN=RIGHT>220,604,396</TD><TD ALIGN=RIGHT>% 43.86</TD> | <TD ALIGN=RIGHT>220,604,396</TD><TD ALIGN=RIGHT>% 43.86</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Dolphin</TD><TD ALIGN=RIGHT>48.537%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>26</TH><TH ALIGN=RIGHT>bosTau4</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>% 46.89</TD> | <TD ALIGN=RIGHT>186,161,294</TD><TD ALIGN=RIGHT>% 46.89</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Cow</TD><TD ALIGN=RIGHT>46.689%</TD> | ||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>27</TH><TH ALIGN=RIGHT>vicPac1</TH><TH ALIGN=RIGHT>298,413</TH> | |||
<TD ALIGN=CENTER | <TD ALIGN=RIGHT>2,962,253,608</TD><TD ALIGN=RIGHT>1,922,910,435</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=RIGHT>1,039,343,173</TD><TD ALIGN=RIGHT>% 32.24</TD> | ||
<TD ALIGN=CENTER>Alpaca</TD><TD ALIGN=RIGHT>39.531%</TD> | |||
<TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>28</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>4,813,823,562</TD><TD ALIGN=RIGHT>2,371,493,872</TD> | ||
<TD ALIGN=RIGHT>2,442,329,690</TD><TD ALIGN=RIGHT>% 37.23</TD> | <TD ALIGN=RIGHT>2,442,329,690</TD><TD ALIGN=RIGHT>% 37.23</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Armadillo</TD><TD ALIGN=RIGHT>33.663%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>29</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> | <TD ALIGN=RIGHT>2,458,927,620</TD><TD ALIGN=RIGHT>2,060,419,685</TD> | ||
<TD ALIGN=RIGHT>398,507,935</TD><TD ALIGN=RIGHT>% 35.67</TD> | <TD ALIGN=RIGHT>398,507,935</TD><TD ALIGN=RIGHT>% 35.67</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Sloth</TD><TD ALIGN=RIGHT>34.463%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>30</TH><TH ALIGN=RIGHT>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>3,823,724,728</TD><TD ALIGN=RIGHT>2,111,581,369</TD> | ||
<TD ALIGN=RIGHT>1,712,143,359</TD><TD ALIGN=RIGHT>% 13.84</TD> | <TD ALIGN=RIGHT>1,712,143,359</TD><TD ALIGN=RIGHT>% 13.84</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Tenrec</TD><TD ALIGN=RIGHT>23.645%</TD> | ||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>31</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>4,170,414,852</TD><TD ALIGN=RIGHT>2,444,975,542</TD> | ||
<TD ALIGN=RIGHT>1,725,439,310</TD><TD ALIGN=RIGHT>% 44.13</TD> | <TD ALIGN=RIGHT>1,725,439,310</TD><TD ALIGN=RIGHT>% 44.13</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Elephant</TD><TD ALIGN=RIGHT>35.204%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | <TD ALIGN=CENTER>medium</TD></TR> | ||
<TR><TH ALIGN=RIGHT>32</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=RIGHT>2,985,258,999</TD><TD ALIGN=RIGHT>2,407,847,681</TD> | ||
<TD ALIGN=RIGHT>577,411,318</TD><TD ALIGN=RIGHT>% 28.11</TD> | <TD ALIGN=RIGHT>577,411,318</TD><TD ALIGN=RIGHT>% 28.11</TD> | ||
<TD ALIGN= | <TD ALIGN=CENTER>Rock hyrax</TD><TD ALIGN=RIGHT>30.935%</TD> | ||
</TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>3000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>medium</TD></TR> | |||
<TR><TH ALIGN=RIGHT>33</TH><TH ALIGN=RIGHT>monDom4</TH><TH ALIGN=RIGHT>10</TH> | |||
<TD ALIGN=RIGHT>3,605,614,649</TD><TD ALIGN=RIGHT>3,501,643,220</TD> | <TD ALIGN=RIGHT>3,605,614,649</TD><TD ALIGN=RIGHT>3,501,643,220</TD> | ||
<TD ALIGN=RIGHT>103,971,429</TD><TD ALIGN=RIGHT>% 55.69</TD> | <TD ALIGN=RIGHT>103,971,429</TD><TD ALIGN=RIGHT>% 55.69</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Opossum</TD><TD ALIGN=RIGHT>12.385%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>34</TH><TH ALIGN=RIGHT>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>% 47.89</TD> | <TD ALIGN=RIGHT>154,575,690</TD><TD ALIGN=RIGHT>% 47.89</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Platypus</TD><TD ALIGN=RIGHT>7.870%</TD> | ||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>35</TH><TH ALIGN=RIGHT>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>% 9.85</TD> | <TD ALIGN=RIGHT>57,897,306</TD><TD ALIGN=RIGHT>% 9.85</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Chicken</TD><TD ALIGN=RIGHT>3.589%</TD> | ||
</TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>36</TH><TH ALIGN=RIGHT>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>% 20.42</TD> | <TD ALIGN=RIGHT>10,321,650</TD><TD ALIGN=RIGHT>% 20.42</TD> | ||
<TD ALIGN= | <TD ALIGN=CENTER>Zebra finch</TD><TD ALIGN=RIGHT>3.503%</TD> | ||
</TR> | <TD ALIGN=CENTER>SyntenicNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>37</TH><TH ALIGN=RIGHT>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>% 42.56</TD> | <TD ALIGN=RIGHT>40,123,970</TD><TD ALIGN=RIGHT>% 42.56</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Lizard</TD><TD ALIGN=RIGHT>4.774%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>RecipBest</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>38</TH><TH ALIGN=RIGHT>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>% 19.65</TD> | <TD ALIGN=RIGHT>154,525,475</TD><TD ALIGN=RIGHT>% 19.65</TD> | ||
<TD ALIGN= | |||
</TR> | <TD ALIGN=CENTER>X. tropicalis</TD><TD ALIGN=RIGHT>2.623%</TD> | ||
<TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>39</TH><TH ALIGN=RIGHT>danRer5</TH><TH ALIGN=RIGHT>5,036</TH> | |||
<TD ALIGN=RIGHT>1,440,582,308</TD><TD ALIGN=RIGHT>1,435,595,672</TD> | <TD ALIGN=RIGHT>1,440,582,308</TD><TD ALIGN=RIGHT>1,435,595,672</TD> | ||
<TD ALIGN=RIGHT>4,986,636</TD><TD ALIGN=RIGHT>% 49.53</TD> | <TD ALIGN=RIGHT>4,986,636</TD><TD ALIGN=RIGHT>% 49.53</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Zebrafish</TD><TD ALIGN=RIGHT>2.565%</TD> | ||
</TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>40</TH><TH ALIGN=RIGHT>tetNig1</TH><TH ALIGN=RIGHT>27</TH> | |||
<TD ALIGN=RIGHT>402,240,326</TD><TD ALIGN=RIGHT>312,394,419</TD> | <TD ALIGN=RIGHT>402,240,326</TD><TD ALIGN=RIGHT>312,394,419</TD> | ||
<TD ALIGN=RIGHT>89,845,907</TD><TD ALIGN=RIGHT>% 4.34</TD> | <TD ALIGN=RIGHT>89,845,907</TD><TD ALIGN=RIGHT>% 4.34</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Tetraodon</TD><TD ALIGN=RIGHT>2.001%</TD> | ||
</TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TR> | |||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>41</TH><TH ALIGN=RIGHT>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>% 19.01</TD> | <TD ALIGN=RIGHT>49,313,545</TD><TD ALIGN=RIGHT>% 19.01</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Fugu</TD><TD ALIGN=RIGHT>1.766%</TD> | ||
</TR> | |||
<TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>2000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
<TR><TH ALIGN=RIGHT>42</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> | <TD ALIGN=RIGHT>463,354,448</TD><TD ALIGN=RIGHT>446,627,861</TD> | ||
<TD ALIGN=RIGHT>16,726,587</TD><TD ALIGN=RIGHT>% 2.58</TD> | <TD ALIGN=RIGHT>16,726,587</TD><TD ALIGN=RIGHT>% 2.58</TD> | ||
<TD ALIGN=RIGHT> | |||
</TR> | <TD ALIGN=CENTER>Stickleback</TD><TD ALIGN=RIGHT>1.923%</TD> | ||
<TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>unknown</TD> | ||
<TD ALIGN=CENTER>unknown</TD></TR> | |||
<TR><TH ALIGN=RIGHT>43</TH><TH ALIGN=RIGHT>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>% 33.09</TD> | <TD ALIGN=RIGHT>168,613,619</TD><TD ALIGN=RIGHT>% 33.09</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Medaka</TD><TD ALIGN=RIGHT>1.829%</TD> | ||
</TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>44</TH><TH ALIGN=RIGHT>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>% 40.67</TD> | <TD ALIGN=RIGHT>195,562,529</TD><TD ALIGN=RIGHT>% 40.67</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=CENTER>Lamprey</TD><TD ALIGN=RIGHT>1.251%</TD> | ||
</TR> | <TD ALIGN=CENTER>MafNet</TD><TD ALIGN=RIGHT>5000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | |||
</TABLE> | </TABLE> | ||
[[Category:Comparative Genomics]] | |||
Latest revision as of 22:44, 18 May 2011
see also
- Human 44-way Hg18 conservation alignment
- Human 44-way Hg18 conservation blastz parameters
- all other UCSC Multiple Alignments
statistics collected from UCSC 2bit files
- 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
- % masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats
- % of hg18 matched (chainLink table) == featureBits hg18 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 | % of hg18 matched (chainLink table) |
alignment type | chain minScore |
chain linearGap |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 01 | hg18 | 49 | 3,107,677,273 | 2,881,421,696 | 226,255,577 | % 48.85 | Human | N/A | N/A | 10000 | medium |
| 02 | panTro2 | 52 | 3,350,447,512 | 2,909,246,738 | 441,200,774 | % 48.90 | Chimp | 94.888% | SyntenicNet | unknown | unknown |
| 03 | gorGor1 | 609,861 | 2,323,645,895 | 2,043,974,660 | 279,671,235 | % 47.27 | Gorilla | 61.731% | RecipBest | 3000 | medium |
| 04 | ponAbe2 | 55 | 3,446,771,396 | 3,093,543,172 | 353,228,224 | % 50.89 | Orangutan | 92.892% | SyntenicNet | 3000 | medium |
| 05 | rheMac2 | 22 | 2,864,106,071 | 2,646,668,809 | 217,437,262 | % 48.28 | Rhesus | 85.552% | SyntenicNet | unknown | unknown |
| 06 | calJac1 | 49,724 | 3,029,401,840 | 2,929,124,957 | 100,276,883 | % 47.50 | Marmoset | 78.351% | RecipBest | 3000 | medium |
| 07 | tarSyr1 | 656,709 | 3,179,905,132 | 2,768,536,343 | 411,368,789 | % 41.75 | Tarsier | 47.999% | RecipBest | 3000 | medium |
| 08 | otoGar1 | 120,882 | 3,420,058,864 | 1,969,052,059 | 1,451,006,805 | % 34.89 | Bushbaby | 44.638% | RecipBest | 3000 | medium |
| 09 | micMur1 | 185,042 | 2,902,270,736 | 1,852,394,361 | 1,049,876,375 | % 37.31 | Mouse lemur | 46.445% | RecipBest | 3000 | medium |
| 10 | tupBel1 | 150,851 | 3,660,774,957 | 2,137,225,476 | 1,523,549,481 | % 20.43 | TreeShrew | 37.348% | RecipBest | unknown | loose |
| 11 | mm9 | 35 | 2,725,765,481 | 2,620,345,972 | 105,419,509 | % 44.09 | Mouse | 35.201% | SyntenicNet | 3000 | medium |
| 12 | rn4 | 45 | 2,834,127,293 | 2,566,294,765 | 267,832,528 | % 44.29 | Rat | 32.893% | SyntenicNet | unknown | medium |
| 13 | dipOrd1 | 210,053 | 2,158,502,098 | 1,844,961,421 | 313,540,677 | % 28.28 | Kangaroo rat | 27.282% | RecipBest | 3000 | medium |
| 14 | cavPor3 | 3,144 | 2,723,219,641 | 2,663,369,733 | 59,849,908 | % 27.53 | Guinea Pig | 43.971% | SyntenicNet | 3000 | medium |
| 15 | speTri1 | 160,889 | 3,488,768,592 | 1,913,367,893 | 1,575,400,699 | % 26.90 | Squirrel | 35.828% | RecipBest | 3000 | medium |
| 16 | oryCun1 | 215,471 | 3,464,410,039 | 2,076,044,328 | 1,388,365,711 | % 37.44 | Rabbit | 34.015% | RecipBest | 3000 | medium |
| 17 | ochPri2 | 187,558 | 3,445,784,354 | 1,923,624,051 | 1,522,160,303 | % 11.44 | Pika | 27.974% | RecipBest | 3000 | medium |
| 18 | sorAra1 | 262,057 | 2,936,119,008 | 1,832,864,697 | 1,103,254,311 | % 39.07 | Shrew | 20.056% | RecipBest | 3000 | medium |
| 19 | eriEur1 | 379,802 | 3,367,787,358 | 2,133,134,836 | 1,234,652,522 | % 50.89 | Hedgehog | 19.622% | RecipBest | 3000 | medium |
| 20 | felCat3 | 217,790 | 4,045,535,322 | 1,642,698,377 | 2,402,836,945 | % 37.66 | Cat | 35.888% | RecipBest | 3000 | medium |
| 21 | canFam2 | 41 | 2,531,673,953 | 2,384,996,543 | 146,677,410 | % 40.63 | Dog | 52.915% | SyntenicNet | 3000 | medium |
| 22 | equCab2 | 34 | 2,484,532,062 | 2,428,790,173 | 55,741,889 | % 40.97 | Horse | 57.162% | SyntenicNet | 3000 | medium |
| 23 | pteVam1 | 96,944 | 1,996,076,410 | 1,839,436,660 | 156,639,750 | % 31.75 | Megabat | 45.502% | RecipBest | 3000 | medium |
| 24 | myoLuc1 | 193,323 | 2,850,051,559 | 1,673,855,868 | 1,176,195,691 | % 24.90 | Microbat | 33.044% | RecipBest | 3000 | medium |
| 25 | turTru1 | 116,467 | 2,519,048,486 | 2,298,444,090 | 220,604,396 | % 43.86 | Dolphin | 48.537% | RecipBest | 3000 | medium |
| 26 | bosTau4 | 11,900 | 2,917,974,530 | 2,731,813,236 | 186,161,294 | % 46.89 | Cow | 46.689% | SyntenicNet | 3000 | medium |
| 27 | vicPac1 | 298,413 | 2,962,253,608 | 1,922,910,435 | 1,039,343,173 | % 32.24 | Alpaca | 39.531% | RecipBest | 3000 | medium |
| 28 | dasNov2 | 292,141 | 4,813,823,562 | 2,371,493,872 | 2,442,329,690 | % 37.23 | Armadillo | 33.663% | RecipBest | 3000 | medium |
| 29 | choHof1 | 481,259 | 2,458,927,620 | 2,060,419,685 | 398,507,935 | % 35.67 | Sloth | 34.463% | RecipBest | 3000 | medium |
| 30 | echTel1 | 325,491 | 3,823,724,728 | 2,111,581,369 | 1,712,143,359 | % 13.84 | Tenrec | 23.645% | RecipBest | 5000 | loose |
| 31 | loxAfr2 | 225,378 | 4,170,414,852 | 2,444,975,542 | 1,725,439,310 | % 44.13 | Elephant | 35.204% | RecipBest | 3000 | medium |
| 32 | proCap1 | 295,006 | 2,985,258,999 | 2,407,847,681 | 577,411,318 | % 28.11 | Rock hyrax | 30.935% | RecipBest | 3000 | medium |
| 33 | monDom4 | 10 | 3,605,614,649 | 3,501,643,220 | 103,971,429 | % 55.69 | Opossum | 12.385% | SyntenicNet | 5000 | loose |
| 34 | ornAna1 | 201,523 | 1,996,811,212 | 1,842,235,522 | 154,575,690 | % 47.89 | Platypus | 7.870% | RecipBest | unknown | loose |
| 35 | galGal3 | 57 | 1,100,480,441 | 1,042,583,135 | 57,897,306 | % 9.85 | Chicken | 3.589% | SyntenicNet | 5000 | loose |
| 36 | taeGut1 | 70 | 1,233,186,341 | 1,222,864,691 | 10,321,650 | % 20.42 | Zebra finch | 3.503% | SyntenicNet | 5000 | loose |
| 37 | anoCar1 | 7,233 | 1,781,602,899 | 1,741,478,929 | 40,123,970 | % 42.56 | Lizard | 4.774% | RecipBest | 5000 | loose |
| 38 | xenTro2 | 19,759 | 1,513,925,492 | 1,359,400,017 | 154,525,475 | % 19.65 | X. tropicalis | 2.623% | MafNet | 5000 | loose |
| 39 | danRer5 | 5,036 | 1,440,582,308 | 1,435,595,672 | 4,986,636 | % 49.53 | Zebrafish | 2.565% | MafNet | 5000 | loose |
| 40 | tetNig1 | 27 | 402,240,326 | 312,394,419 | 89,845,907 | % 4.34 | Tetraodon | 2.001% | MafNet | 5000 | loose |
| 41 | fr2 | 2 | 400,525,790 | 351,212,245 | 49,313,545 | % 19.01 | Fugu | 1.766% | MafNet | 2000 | loose |
| 42 | gasAcu1 | 23 | 463,354,448 | 446,627,861 | 16,726,587 | % 2.58 | Stickleback | 1.923% | MafNet | unknown | unknown |
| 43 | oryLat2 | 7,189 | 869,000,216 | 700,386,597 | 168,613,619 | % 33.09 | Medaka | 1.829% | MafNet | 5000 | loose |
| 44 | petMar1 | 108,241 | 1,027,258,967 | 831,696,438 | 195,562,529 | % 40.67 | Lamprey | 1.251% | MafNet | 5000 | loose |
