Ce11 26-way Genome size statistics: Difference between revisions
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<TH>chain<BR>linearGap</TH> | <TH>chain<BR>linearGap</TH> | ||
<TR> | <TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/genome/assembly/554278 01]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ce11 ce11]</TH> | ||
<TH ALIGN=RIGHT>7</TH> | <TH ALIGN=RIGHT>7</TH> | ||
<TD ALIGN=RIGHT>100,286,401</TD><TD ALIGN=RIGHT>100,286,401</TD> | <TD ALIGN=RIGHT>100,286,401</TD><TD ALIGN=RIGHT>100,286,401</TD> | ||
<TD ALIGN=RIGHT>0</TD><TD ALIGN=RIGHT>% 12.62</TD> | <TD ALIGN=RIGHT>0</TD><TD ALIGN=RIGHT>% 12.62</TD> | ||
<TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_elegans/all_assembly_versions/GCA_000002985.3_WBcel235/ C. elegans]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>17493829</TH> | <TH ALIGN=CENTER>17493829</TH> | ||
<TD ALIGN=CENTER>N/A</TD><TD ALIGN=RIGHT>N/A</TD> | <TD ALIGN=CENTER>N/A</TD><TD ALIGN=RIGHT>N/A</TD> | ||
<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>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000147155.1 02]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeJap4 caeJap4]</TH> | ||
<TH ALIGN=RIGHT>18,817</TH> | <TH ALIGN=RIGHT>18,817</TH> | ||
<TD ALIGN=RIGHT>166,256,191</TD><TD ALIGN=RIGHT>154,057,934</TD> | <TD ALIGN=RIGHT>166,256,191</TD><TD ALIGN=RIGHT>154,057,934</TD> | ||
<TD ALIGN=RIGHT>12,198,257</TD><TD ALIGN=RIGHT>% 46.77</TD> | <TD ALIGN=RIGHT>12,198,257</TD><TD ALIGN=RIGHT>% 46.77</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_japonica/all_assembly_versions/GCA_000147155.1_C_japonica-7.0.1/ C. japonica]</TD><TH ALIGN=CENTER>22X</TH> | ||
<TH ALIGN=CENTER>94149</TH> | <TH ALIGN=CENTER>94149</TH> | ||
<TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>27.709%</TD> | <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>27.709%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000143925.2 03]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caePb3 caePb3]</TH> | ||
<TH ALIGN=RIGHT>3,305</TH> | <TH ALIGN=RIGHT>3,305</TH> | ||
<TD ALIGN=RIGHT>190,369,721</TD><TD ALIGN=RIGHT>170,093,638</TD> | <TD ALIGN=RIGHT>190,369,721</TD><TD ALIGN=RIGHT>170,093,638</TD> | ||
<TD ALIGN=RIGHT>20,276,083</TD><TD ALIGN=RIGHT>% 29.30</TD> | <TD ALIGN=RIGHT>20,276,083</TD><TD ALIGN=RIGHT>% 29.30</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_brenneri/all_assembly_versions/GCA_000143925.2_C_brenneri-6.0.1b/ C. brenneri]</TD><TH ALIGN=CENTER>9.5X</TH> | ||
<TH ALIGN=CENTER>381961</TH> | <TH ALIGN=CENTER>381961</TH> | ||
<TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>40.638%</TD> | <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>40.638%</TD> | ||
Line 74: | Line 74: | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000186765.1 05]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp111 caeSp111]</TH> | ||
<TH ALIGN=RIGHT>665</TH> | <TH ALIGN=RIGHT>665</TH> | ||
<TD ALIGN=RIGHT>79,321,433</TD><TD ALIGN=RIGHT>76,497,192</TD> | <TD ALIGN=RIGHT>79,321,433</TD><TD ALIGN=RIGHT>76,497,192</TD> | ||
<TD ALIGN=RIGHT>2,824,241</TD><TD ALIGN=RIGHT>% 29.15</TD> | <TD ALIGN=RIGHT>2,824,241</TD><TD ALIGN=RIGHT>% 29.15</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_sp._11_KK-2011/all_assembly_versions/GCA_000186765.1_Caenorhabditis_sp11_JU1373-3.0.1/ C. tropicalis]</TD><TH ALIGN=CENTER>20.2X</TH> | ||
<TH ALIGN=CENTER>20921866</TH> | <TH ALIGN=CENTER>20921866</TH> | ||
<TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>37.870%</TD> | <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>37.870%</TD> | ||
Line 92: | Line 92: | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/c_angaria 07]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeAng2 caeAng2]</TH> | ||
<TH ALIGN=RIGHT>34,621</TH> | <TH ALIGN=RIGHT>34,621</TH> | ||
<TD ALIGN=RIGHT>105,997,628</TD><TD ALIGN=RIGHT>94,555,035</TD> | <TD ALIGN=RIGHT>105,997,628</TD><TD ALIGN=RIGHT>94,555,035</TD> | ||
<TD ALIGN=RIGHT>11,442,593</TD><TD ALIGN=RIGHT>% 39.91</TD> | <TD ALIGN=RIGHT>11,442,593</TD><TD ALIGN=RIGHT>% 39.91</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA51225/ C. angaria]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>79858</TH> | <TH ALIGN=CENTER>79858</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>17.682%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>17.682%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/c_sp5 08]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp51 caeSp51]</TH> | ||
<TH ALIGN=RIGHT>15,261</TH> | <TH ALIGN=RIGHT>15,261</TH> | ||
<TD ALIGN=RIGHT>131,797,386</TD><TD ALIGN=RIGHT>130,391,159</TD> | <TD ALIGN=RIGHT>131,797,386</TD><TD ALIGN=RIGHT>130,391,159</TD> | ||
<TD ALIGN=RIGHT>1,406,227</TD><TD ALIGN=RIGHT>% 28.16</TD> | <TD ALIGN=RIGHT>1,406,227</TD><TD ALIGN=RIGHT>% 28.16</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA194557/ C. sp. 5 ju800]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>25228</TH> | <TH ALIGN=CENTER>25228</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>40.332%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>40.332%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000223415.1/ 09]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=hetBac1 hetBac1]</TH> | ||
<TH ALIGN=RIGHT>1,241</TH> | <TH ALIGN=RIGHT>1,241</TH> | ||
<TD ALIGN=RIGHT>76,992,477</TD><TD ALIGN=RIGHT>74,374,900</TD> | <TD ALIGN=RIGHT>76,992,477</TD><TD ALIGN=RIGHT>74,374,900</TD> | ||
<TD ALIGN=RIGHT>2,617,577</TD><TD ALIGN=RIGHT>% 24.47</TD> | <TD ALIGN=RIGHT>2,617,577</TD><TD ALIGN=RIGHT>% 24.47</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Heterorhabditis_bacteriophora/all_assembly_versions/GCA_000223415.1_Heterorhabditis_bacteriophora-7.0/ H. bacteriophora/m31e]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>312328</TH> | <TH ALIGN=CENTER>312328</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>10.486%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>10.486%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/p_redivivus 10]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=panRed1 panRed1]</TH> | ||
<TH ALIGN=RIGHT>941</TH> | <TH ALIGN=RIGHT>941</TH> | ||
<TD ALIGN=RIGHT>65,110,236</TD><TD ALIGN=RIGHT>62,090,108</TD> | <TD ALIGN=RIGHT>65,110,236</TD><TD ALIGN=RIGHT>62,090,108</TD> | ||
<TD ALIGN=RIGHT>3,020,128</TD><TD ALIGN=RIGHT>% 14.57</TD> | <TD ALIGN=RIGHT>3,020,128</TD><TD ALIGN=RIGHT>% 14.57</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA186477/ Microworm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>262414</TH> | <TH ALIGN=CENTER>262414</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.585%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.585%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_001040885.1/ 11]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=strRat2 strRat2]</TH> | ||
<TH ALIGN=RIGHT>135</TH> | <TH ALIGN=RIGHT>135</TH> | ||
<TD ALIGN=RIGHT>43,150,242</TD><TD ALIGN=RIGHT>42,896,169</TD> | <TD ALIGN=RIGHT>43,150,242</TD><TD ALIGN=RIGHT>42,896,169</TD> | ||
<TD ALIGN=RIGHT>254,073</TD><TD ALIGN=RIGHT>% 55.64</TD> | <TD ALIGN=RIGHT>254,073</TD><TD ALIGN=RIGHT>% 55.64</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Strongyloides_ratti/all_assembly_versions/GCA_001040885.1_S_ratti_ED321/ Threadworm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>11693564</TH> | <TH ALIGN=CENTER>11693564</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.669%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.669%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000298755.1 12]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ascSuu1 ascSuu1]</TH> | ||
<TH ALIGN=RIGHT>12,989</TH> | <TH ALIGN=RIGHT>12,989</TH> | ||
<TD ALIGN=RIGHT>269,573,965</TD><TD ALIGN=RIGHT>262,604,319</TD> | <TD ALIGN=RIGHT>269,573,965</TD><TD ALIGN=RIGHT>262,604,319</TD> | ||
<TD ALIGN=RIGHT>6,969,646</TD><TD ALIGN=RIGHT>% 21.48</TD> | <TD ALIGN=RIGHT>6,969,646</TD><TD ALIGN=RIGHT>% 21.48</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ascaris_suum/all_assembly_versions/GCA_000298755.1_AscSuum_1.0/ Pig roundworm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>413062</TH> | <TH ALIGN=CENTER>413062</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.722%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.722%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/h_contortus 13]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=haeCon2 haeCon2]</TH> | ||
<TH ALIGN=RIGHT>23,823</TH> | <TH ALIGN=RIGHT>23,823</TH> | ||
<TD ALIGN=RIGHT>369,720,058</TD><TD ALIGN=RIGHT>345,915,897</TD> | <TD ALIGN=RIGHT>369,720,058</TD><TD ALIGN=RIGHT>345,915,897</TD> | ||
<TD ALIGN=RIGHT>23,804,161</TD><TD ALIGN=RIGHT>% 21.16</TD> | <TD ALIGN=RIGHT>23,804,161</TD><TD ALIGN=RIGHT>% 21.16</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB506/ Barber pole worm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>83299</TH> | <TH ALIGN=CENTER>83299</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>8.936%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>8.936%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000688135.1 14]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ancCey1 ancCey1]</TH> | ||
<TH ALIGN=RIGHT>1,736</TH> | <TH ALIGN=RIGHT>1,736</TH> | ||
<TD ALIGN=RIGHT>313,092,710</TD><TD ALIGN=RIGHT>300,901,610</TD> | <TD ALIGN=RIGHT>313,092,710</TD><TD ALIGN=RIGHT>300,901,610</TD> | ||
<TD ALIGN=RIGHT>12,191,100</TD><TD ALIGN=RIGHT>% 22.06</TD> | <TD ALIGN=RIGHT>12,191,100</TD><TD ALIGN=RIGHT>% 22.06</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ancylostoma_ceylanicum/all_assembly_versions/GCA_000688135.1_Acey_2013.11.30.genDNA/ A. ceylanicum]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>668412</TH> | <TH ALIGN=CENTER>668412</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>9.736%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>9.736%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCF_000507365.1 15]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=necAme1 necAme1]</TH> | ||
<TH ALIGN=RIGHT>11,865</TH> | <TH ALIGN=RIGHT>11,865</TH> | ||
<TD ALIGN=RIGHT>244,088,665</TD><TD ALIGN=RIGHT>208,187,215</TD> | <TD ALIGN=RIGHT>244,088,665</TD><TD ALIGN=RIGHT>208,187,215</TD> | ||
<TD ALIGN=RIGHT>35,901,450</TD><TD ALIGN=RIGHT>% 25.80</TD> | <TD ALIGN=RIGHT>35,901,450</TD><TD ALIGN=RIGHT>% 25.80</TD> | ||
<TD ALIGN=CENTER>[N | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Necator_americanus/all_assembly_versions/GCA_000507365.1_N_americanus_v1/ N. americanus]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>211861</TH> | <TH ALIGN=CENTER>211861</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>8.902%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>8.902%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/p_exspectatus 16]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=priExs1 priExs1]</TH> | ||
<TH ALIGN=RIGHT>4,369</TH> | <TH ALIGN=RIGHT>4,369</TH> | ||
<TD ALIGN=RIGHT>177,536,987</TD><TD ALIGN=RIGHT>166,915,502</TD> | <TD ALIGN=RIGHT>177,536,987</TD><TD ALIGN=RIGHT>166,915,502</TD> | ||
<TD ALIGN=RIGHT>10,621,485</TD><TD ALIGN=RIGHT>% 23.30</TD> | <TD ALIGN=RIGHT>10,621,485</TD><TD ALIGN=RIGHT>% 23.30</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB6009/ P. exspectatus]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>142245</TH> | <TH ALIGN=CENTER>142245</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.222%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.222%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/p_pacificus 17]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=priPac3 priPac3]</TH> | ||
<TH ALIGN=RIGHT>18,084</TH> | <TH ALIGN=RIGHT>18,084</TH> | ||
<TD ALIGN=RIGHT>172,510,819</TD><TD ALIGN=RIGHT>153,208,199</TD> | <TD ALIGN=RIGHT>172,510,819</TD><TD ALIGN=RIGHT>153,208,199</TD> | ||
<TD ALIGN=RIGHT>19,302,620</TD><TD ALIGN=RIGHT>% 23.93</TD> | <TD ALIGN=RIGHT>19,302,620</TD><TD ALIGN=RIGHT>% 23.93</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA12644/ P. pacificus]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>1244534</TH> | <TH ALIGN=CENTER>1244534</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.308%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.308%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/b_xylophilus 18]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=burXyl1 burXyl1]</TH> | ||
<TH ALIGN=RIGHT>5,528</TH> | <TH ALIGN=RIGHT>5,528</TH> | ||
<TD ALIGN=RIGHT>74,576,239</TD><TD ALIGN=RIGHT>73,100,506</TD> | <TD ALIGN=RIGHT>74,576,239</TD><TD ALIGN=RIGHT>73,100,506</TD> | ||
<TD ALIGN=RIGHT>1,475,733</TD><TD ALIGN=RIGHT>% 28.93</TD> | <TD ALIGN=RIGHT>1,475,733</TD><TD ALIGN=RIGHT>% 28.93</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA64437/ Pine wood nematode]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>949830</TH> | <TH ALIGN=CENTER>949830</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.291%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>6.291%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/b_malayi 19]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=bruMal2 bruMal2]</TH> | ||
<TH ALIGN=RIGHT>9, | <TH ALIGN=RIGHT>9,781</TH> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=RIGHT>95,156,665</TD><TD ALIGN=RIGHT>87,397,445</TD> | ||
<TD ALIGN=RIGHT>7,759,220</TD><TD ALIGN=RIGHT>% 38. | <TD ALIGN=RIGHT>7,759,220</TD><TD ALIGN=RIGHT>% 38.02</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA10729/ Filarial worm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>191089</TH> | <TH ALIGN=CENTER>191089</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5. | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.065%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/m_hapla 20]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=melHap1 melHap1]</TH> | ||
<TH ALIGN=RIGHT>3,452</TH> | <TH ALIGN=RIGHT>3,452</TH> | ||
<TD ALIGN=RIGHT>53,017,507</TD><TD ALIGN=RIGHT>53,017,507</TD> | <TD ALIGN=RIGHT>53,017,507</TD><TD ALIGN=RIGHT>53,017,507</TD> | ||
<TD ALIGN=RIGHT>0</TD><TD ALIGN=RIGHT>% 52.96</TD> | <TD ALIGN=RIGHT>0</TD><TD ALIGN=RIGHT>% 52.96</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS210/genomes/m_hapla/ M. hapla]</TD><TH ALIGN=CENTER>10.4X</TH> | ||
<TH ALIGN=CENTER>37608</TH> | <TH ALIGN=CENTER>37608</TH> | ||
<TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>3.916%</TD> | <TH ALIGN=CENTER>Net</TH><TD ALIGN=RIGHT>3.916%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/m_incognita 21]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=melInc2 melInc2]</TH> | ||
<TH ALIGN=RIGHT>2,996</TH> | <TH ALIGN=RIGHT>2,996</TH> | ||
<TD ALIGN=RIGHT>86,079,534</TD><TD ALIGN=RIGHT>82,112,681</TD> | <TD ALIGN=RIGHT>86,079,534</TD><TD ALIGN=RIGHT>82,112,681</TD> | ||
<TD ALIGN=RIGHT>3,966,853</TD><TD ALIGN=RIGHT>% 43.99</TD> | <TD ALIGN=RIGHT>3,966,853</TD><TD ALIGN=RIGHT>% 43.99</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA28837/ M. incognita]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>62516</TH> | <TH ALIGN=CENTER>62516</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>3.516%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>3.516%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000499405.1 22]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=oncVol1 oncVol1]</TH> | ||
<TH ALIGN=RIGHT> | <TH ALIGN=RIGHT>710</TH> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=RIGHT>97,402,144</TD><TD ALIGN=RIGHT>94,327,777</TD> | ||
<TD ALIGN=RIGHT>3,074,367</TD><TD ALIGN=RIGHT>% 37. | <TD ALIGN=RIGHT>3,074,367</TD><TD ALIGN=RIGHT>% 37.03</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Onchocerca_volvulus/all_assembly_versions/GCA_000499405.1_OVOC001/ O. volvulus]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>25485961</TH> | <TH ALIGN=CENTER>25485961</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5. | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.193%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCF_000181795.1 23]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=triSpi1 triSpi1]</TH> | ||
<TH ALIGN=RIGHT>6,864</TH> | <TH ALIGN=RIGHT>6,864</TH> | ||
<TD ALIGN=RIGHT>63,542,128</TD><TD ALIGN=RIGHT>58,555,140</TD> | <TD ALIGN=RIGHT>63,542,128</TD><TD ALIGN=RIGHT>58,555,140</TD> | ||
<TD ALIGN=RIGHT>4,986,988</TD><TD ALIGN=RIGHT>% 33.95</TD> | <TD ALIGN=RIGHT>4,986,988</TD><TD ALIGN=RIGHT>% 33.95</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichinella_spiralis/all_assembly_versions/GCA_000181795.2_Trichinella_spiralis-3.7.1/ Trichinella]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>6373445</TH> | <TH ALIGN=CENTER>6373445</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>2.848%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>2.848%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000701005.1 24]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=triSui1 triSui1]</TH> | ||
<TH ALIGN=RIGHT>4,293</TH> | <TH ALIGN=RIGHT>4,293</TH> | ||
<TD ALIGN=RIGHT>74,248,995</TD><TD ALIGN=RIGHT>71,825,189</TD> | <TD ALIGN=RIGHT>74,248,995</TD><TD ALIGN=RIGHT>71,825,189</TD> | ||
<TD ALIGN=RIGHT>2,423,806</TD><TD ALIGN=RIGHT>% 12.36</TD> | <TD ALIGN=RIGHT>2,423,806</TD><TD ALIGN=RIGHT>% 12.36</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichuris_suis/all_assembly_versions/GCA_000701005.1_Tsuis_adult_male_v1.0/ Whipworm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>503034</TH> | <TH ALIGN=CENTER>503034</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>2.917%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>2.917%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.wormbase.org/species/d_immitis 25]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=dirImm1 dirImm1]</TH> | ||
<TH ALIGN=RIGHT>16,062</TH> | <TH ALIGN=RIGHT>16,062</TH> | ||
<TD ALIGN=RIGHT>88,323,343</TD><TD ALIGN=RIGHT>84,892,734</TD> | <TD ALIGN=RIGHT>88,323,343</TD><TD ALIGN=RIGHT>84,892,734</TD> | ||
<TD ALIGN=RIGHT>3,430,609</TD><TD ALIGN=RIGHT>% 39.12</TD> | <TD ALIGN=RIGHT>3,430,609</TD><TD ALIGN=RIGHT>% 39.12</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB1797/ Dog heartworm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>71281</TH> | <TH ALIGN=CENTER>71281</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.005%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.005%</TD> | ||
<TD ALIGN=RIGHT>1000</TD> | <TD ALIGN=RIGHT>1000</TD> | ||
<TD ALIGN=CENTER>loose</TD></TR> | <TD ALIGN=CENTER>loose</TD></TR> | ||
<TR><TH ALIGN=RIGHT>[ | <TR><TH ALIGN=RIGHT>[http://www.ncbi.nlm.nih.gov/assembly/GCA_000183805.3 26]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=loaLoa1 loaLoa1]</TH> | ||
<TH ALIGN=RIGHT>5,765</TH> | <TH ALIGN=RIGHT>5,765</TH> | ||
<TD ALIGN=RIGHT>91,379,422</TD><TD ALIGN=RIGHT>87,532,183</TD> | <TD ALIGN=RIGHT>91,379,422</TD><TD ALIGN=RIGHT>87,532,183</TD> | ||
<TD ALIGN=RIGHT>3,847,239</TD><TD ALIGN=RIGHT>% 32.15</TD> | <TD ALIGN=RIGHT>3,847,239</TD><TD ALIGN=RIGHT>% 32.15</TD> | ||
<TD ALIGN=CENTER>[ | <TD ALIGN=CENTER>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Loa_loa/all_assembly_versions/GCA_000183805.3_Loa_loa_V3.1/ Eye worm]</TD><TH ALIGN=CENTER> </TH> | ||
<TH ALIGN=CENTER>174388</TH> | <TH ALIGN=CENTER>174388</TH> | ||
<TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.056%</TD> | <TD ALIGN=CENTER>Net</TD><TD ALIGN=RIGHT>5.056%</TD> |
Revision as of 20:33, 27 August 2015
see also
- C. elegans 26-way Ce11 26-way conservation alignment
- C. elegans 26-way Ce11 26-way conservation lastz parameters
- all other UCSC Multiple Alignments
statistics collected from UCSC 2bit files
- The external link in the first column goes to the FTP location where the genome sequence was obtained
- The external links from the UCSC database name go to the UCSC genome-test browser for that 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 % masked is masking from Repeat Masker or Window Masker plus TRF/Simple Repeats, whichever is greater, usually WindowMasker for these genomes
- The common name external links go to information pages for this genome
- 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
do not edit, automatically generated table
order count/ ftp src |
ucsc db name/ genome-test |
chrom count |
total size |
non-N bases |
N base count |
% masked | common name/ src info |
coverage | N50 chrom.sizes |
alignment type | % of ce11 matched (chainLink table) |
chain minScore |
chain linearGap |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
01 | ce11 | 7 | 100,286,401 | 100,286,401 | 0 | % 12.62 | C. elegans | 17493829 | N/A | N/A | N/A | N/A | |
02 | caeJap4 | 18,817 | 166,256,191 | 154,057,934 | 12,198,257 | % 46.77 | C. japonica | 22X | 94149 | Net | 27.709% | 1000 | loose |
03 | caePb3 | 3,305 | 190,369,721 | 170,093,638 | 20,276,083 | % 29.30 | C. brenneri | 9.5X | 381961 | Net | 40.638% | 1000 | loose |
04 | caeRem4 | 3,670 | 145,442,736 | 138,406,203 | 7,036,533 | % 30.48 | C. remanei | 9.2X | 435512 | Net | 41.715% | 1000 | loose |
05 | caeSp111 | 665 | 79,321,433 | 76,497,192 | 2,824,241 | % 29.15 | C. tropicalis | 20.2X | 20921866 | Net | 37.870% | 1000 | loose |
06 | cb4 | 13 | 108,434,085 | 105,430,959 | 3,003,126 | % 36.52 | C. briggsae | 10X | 17485439 | Net | 39.384% | 1000 | loose |
07 | caeAng2 | 34,621 | 105,997,628 | 94,555,035 | 11,442,593 | % 39.91 | C. angaria | 79858 | Net | 17.682% | 1000 | loose | |
08 | caeSp51 | 15,261 | 131,797,386 | 130,391,159 | 1,406,227 | % 28.16 | C. sp. 5 ju800 | 25228 | Net | 40.332% | 1000 | loose | |
09 | hetBac1 | 1,241 | 76,992,477 | 74,374,900 | 2,617,577 | % 24.47 | H. bacteriophora/m31e | 312328 | Net | 10.486% | 1000 | loose | |
10 | panRed1 | 941 | 65,110,236 | 62,090,108 | 3,020,128 | % 14.57 | Microworm | 262414 | Net | 6.585% | 1000 | loose | |
11 | strRat2 | 135 | 43,150,242 | 42,896,169 | 254,073 | % 55.64 | Threadworm | 11693564 | Net | 5.669% | 1000 | loose | |
12 | ascSuu1 | 12,989 | 269,573,965 | 262,604,319 | 6,969,646 | % 21.48 | Pig roundworm | 413062 | Net | 5.722% | 1000 | loose | |
13 | haeCon2 | 23,823 | 369,720,058 | 345,915,897 | 23,804,161 | % 21.16 | Barber pole worm | 83299 | Net | 8.936% | 1000 | loose | |
14 | ancCey1 | 1,736 | 313,092,710 | 300,901,610 | 12,191,100 | % 22.06 | A. ceylanicum | 668412 | Net | 9.736% | 1000 | loose | |
15 | necAme1 | 11,865 | 244,088,665 | 208,187,215 | 35,901,450 | % 25.80 | N. americanus | 211861 | Net | 8.902% | 1000 | loose | |
16 | priExs1 | 4,369 | 177,536,987 | 166,915,502 | 10,621,485 | % 23.30 | P. exspectatus | 142245 | Net | 6.222% | 1000 | loose | |
17 | priPac3 | 18,084 | 172,510,819 | 153,208,199 | 19,302,620 | % 23.93 | P. pacificus | 1244534 | Net | 6.308% | 1000 | loose | |
18 | burXyl1 | 5,528 | 74,576,239 | 73,100,506 | 1,475,733 | % 28.93 | Pine wood nematode | 949830 | Net | 6.291% | 1000 | loose | |
19 | bruMal2 | 9,781 | 95,156,665 | 87,397,445 | 7,759,220 | % 38.02 | Filarial worm | 191089 | Net | 5.065% | 1000 | loose | |
20 | melHap1 | 3,452 | 53,017,507 | 53,017,507 | 0 | % 52.96 | M. hapla | 10.4X | 37608 | Net | 3.916% | 1000 | loose |
21 | melInc2 | 2,996 | 86,079,534 | 82,112,681 | 3,966,853 | % 43.99 | M. incognita | 62516 | Net | 3.516% | 1000 | loose | |
22 | oncVol1 | 710 | 97,402,144 | 94,327,777 | 3,074,367 | % 37.03 | O. volvulus | 25485961 | Net | 5.193% | 1000 | loose | |
23 | triSpi1 | 6,864 | 63,542,128 | 58,555,140 | 4,986,988 | % 33.95 | Trichinella | 6373445 | Net | 2.848% | 1000 | loose | |
24 | triSui1 | 4,293 | 74,248,995 | 71,825,189 | 2,423,806 | % 12.36 | Whipworm | 503034 | Net | 2.917% | 1000 | loose | |
25 | dirImm1 | 16,062 | 88,323,343 | 84,892,734 | 3,430,609 | % 39.12 | Dog heartworm | 71281 | Net | 5.005% | 1000 | loose | |
26 | loaLoa1 | 5,765 | 91,379,422 | 87,532,183 | 3,847,239 | % 32.15 | Eye worm | 174388 | Net | 5.056% | 1000 | loose |