Ce11 26-way Genome size statistics: Difference between revisions

Latest revision as of 18:10, 3 September 2015

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-preview 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-preview	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	30X	17493829	N/A	N/A	N/A	N/A
02	caeSp51	15,261	131,797,386	130,391,159	1,406,227	% 28.16	C. sp. 5 ju800		25228	Net	40.332%	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	cb4	13	108,434,085	105,430,959	3,003,126	% 36.52	C. briggsae	10X	17485439	Net	39.384%	1000	loose
06	caeSp111	665	79,321,433	76,497,192	2,824,241	% 29.15	C. tropicalis	20.2X	20921866	Net	37.870%	1000	loose
07	caeJap4	18,817	166,256,191	154,057,934	12,198,257	% 46.77	C. japonica	22X	94149	Net	27.709%	1000	loose
08	caeAng2	34,621	105,997,628	94,555,035	11,442,593	% 39.91	C. angaria	170X	79858	Net	17.682%	1000	loose
09	priPac3	18,084	172,510,819	153,208,199	19,302,620	% 23.93	P. pacificus		1244534	Net	6.308%	1000	loose
10	priExs1	4,369	177,536,987	166,915,502	10,621,485	% 23.30	P. exspectatus		142245	Net	6.222%	1000	loose
11	burXyl1	5,528	74,576,239	73,100,506	1,475,733	% 28.93	Pine wood nematode		949830	Net	6.291%	1000	loose
12	ancCey1	1,736	313,092,710	300,901,610	12,191,100	% 22.06	A. ceylanicum	76.0X	668412	Net	9.736%	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	necAme1	11,865	244,088,665	208,187,215	35,901,450	% 25.80	N. americanus	26.15X	211861	Net	8.902%	1000	loose
15	panRed1	941	65,110,236	62,090,108	3,020,128	% 14.57	Microworm		262414	Net	6.585%	1000	loose
16	hetBac1	1,241	76,992,477	74,374,900	2,617,577	% 24.47	H. bacteriophora/m31e	26.1X	312328	Net	10.486%	1000	loose
17	ascSuu1	12,989	269,573,965	262,604,319	6,969,646	% 21.48	Pig roundworm	90X	413062	Net	5.722%	1000	loose
18	strRat2	135	43,150,242	42,896,169	254,073	% 55.64	Threadworm		11693564	Net	5.669%	1000	loose
19	triSpi1	6,864	63,542,128	58,555,140	4,986,988	% 33.95	Trichinella	34.6X	6373445	Net	2.848%	1000	loose
20	triSui1	4,293	74,248,995	71,825,189	2,423,806	% 12.36	Whipworm	140X	503034	Net	2.917%	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	melHap1	3,452	53,017,507	53,017,507	0	% 52.96	M. hapla	10.4X	37608	Net	3.916%	1000	loose
23	bruMal2	9,781	95,156,665	87,397,445	7,759,220	% 38.02	Filarial worm		191089	Net	5.065%	1000	loose
24	oncVol1	710	97,402,144	94,327,777	3,074,367	% 37.03	O. volvulus		25485961	Net	5.193%	1000	loose
25	loaLoa1	5,765	91,379,422	87,532,183	3,847,239	% 32.15	Eye worm	20X	174388	Net	5.056%	1000	loose
26	dirImm1	16,062	88,323,343	84,892,734	3,430,609	% 39.12	Dog heartworm		71281	Net	5.005%	1000	loose

@@ Line 5: / Line 5: @@
 <LI>C. elegans 26-way [[Ce11 26-way conservation lastz parameters]]</LI>
 <LI>all other [[UCSC Multiple Alignments]]</LI>
+<LI>see also: [[Ws245ChainNet|matrix]] of all pair-wise alignments
 </UL>
@@ Line 10: / Line 11: @@
 <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>The external links from the UCSC database name go to the UCSC genome-preview 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>
@@ Line 24: / Line 25: @@
 <TABLE BORDER=1>
 <TR><TH>order<BR>count/<BR>ftp&nbsp;src</TH>
-   <TH>ucsc<BR>db&nbsp;name/<BR>genome-test</TH>
+   <TH>ucsc<BR>db&nbsp;name/<BR>genome-preview</TH>
    <TH>chrom<BR>count</TH>
    <TH>total<BR>size</TH>
@@ Line 38: / Line 39: @@
    <TH>chain<BR>linearGap</TH>
 <TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_elegans/all_assembly_versions/GCA_000002985.3_WBcel235/ 01]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ce11 ce11]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_elegans/all_assembly_versions/GCA_000002985.3_WBcel235/ 01]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=ce11 ce11]</TH>
 <TH ALIGN=RIGHT>7</TH>
    <TD ALIGN=RIGHT>100,286,401</TD><TD ALIGN=RIGHT>100,286,401</TD>
@@ Line 47: / Line 48: @@
 <TD ALIGN=RIGHT>N/A</TD>
    <TD ALIGN=CENTER>N/A</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA194557/ 02]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp51 caeSp51]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA194557/ 02]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp51 caeSp51]</TH>
 <TH ALIGN=RIGHT>15,261</TH>
    <TD ALIGN=RIGHT>131,797,386</TD><TD ALIGN=RIGHT>130,391,159</TD>
@@ Line 56: / Line 57: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_brenneri/all_assembly_versions/GCA_000143925.2_C_brenneri-6.0.1b/ 03]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caePb3 caePb3]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_brenneri/all_assembly_versions/GCA_000143925.2_C_brenneri-6.0.1b/ 03]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caePb3 caePb3]</TH>
 <TH ALIGN=RIGHT>3,305</TH>
    <TD ALIGN=RIGHT>190,369,721</TD><TD ALIGN=RIGHT>170,093,638</TD>
@@ Line 65: / Line 66: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_remanei/ 04]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeRem4 caeRem4]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_remanei/ 04]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caeRem4 caeRem4]</TH>
 <TH ALIGN=RIGHT>3,670</TH>
    <TD ALIGN=RIGHT>145,442,736</TD><TD ALIGN=RIGHT>138,406,203</TD>
@@ Line 74: / Line 75: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS225/genomes/c_briggsae/ 05]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=cb4 cb4]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS225/genomes/c_briggsae/ 05]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=cb4 cb4]</TH>
 <TH ALIGN=RIGHT>13</TH>
    <TD ALIGN=RIGHT>108,434,085</TD><TD ALIGN=RIGHT>105,430,959</TD>
@@ Line 83: / Line 84: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[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/ 06]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp111 caeSp111]</TH>
+<TR><TH ALIGN=RIGHT>[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/ 06]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp111 caeSp111]</TH>
 <TH ALIGN=RIGHT>665</TH>
    <TD ALIGN=RIGHT>79,321,433</TD><TD ALIGN=RIGHT>76,497,192</TD>
@@ Line 92: / Line 93: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_japonica/all_assembly_versions/GCA_000147155.1_C_japonica-7.0.1/ 07]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeJap4 caeJap4]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Caenorhabditis_japonica/all_assembly_versions/GCA_000147155.1_C_japonica-7.0.1/ 07]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caeJap4 caeJap4]</TH>
 <TH ALIGN=RIGHT>18,817</TH>
    <TD ALIGN=RIGHT>166,256,191</TD><TD ALIGN=RIGHT>154,057,934</TD>
@@ Line 101: / Line 102: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA51225/ 08]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeAng2 caeAng2]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA51225/ 08]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=caeAng2 caeAng2]</TH>
 <TH ALIGN=RIGHT>34,621</TH>
    <TD ALIGN=RIGHT>105,997,628</TD><TD ALIGN=RIGHT>94,555,035</TD>
@@ Line 110: / Line 111: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA12644/ 09]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=priPac3 priPac3]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA12644/ 09]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=priPac3 priPac3]</TH>
 <TH ALIGN=RIGHT>18,084</TH>
    <TD ALIGN=RIGHT>172,510,819</TD><TD ALIGN=RIGHT>153,208,199</TD>
@@ Line 119: / Line 120: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB6009/ 10]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=priExs1 priExs1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB6009/ 10]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=priExs1 priExs1]</TH>
 <TH ALIGN=RIGHT>4,369</TH>
    <TD ALIGN=RIGHT>177,536,987</TD><TD ALIGN=RIGHT>166,915,502</TD>
@@ Line 128: / Line 129: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA64437/ 11]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=burXyl1 burXyl1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA64437/ 11]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=burXyl1 burXyl1]</TH>
 <TH ALIGN=RIGHT>5,528</TH>
    <TD ALIGN=RIGHT>74,576,239</TD><TD ALIGN=RIGHT>73,100,506</TD>
@@ Line 137: / Line 138: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ancylostoma_ceylanicum/all_assembly_versions/GCA_000688135.1_Acey_2013.11.30.genDNA/ 12]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ancCey1 ancCey1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ancylostoma_ceylanicum/all_assembly_versions/GCA_000688135.1_Acey_2013.11.30.genDNA/ 12]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=ancCey1 ancCey1]</TH>
 <TH ALIGN=RIGHT>1,736</TH>
    <TD ALIGN=RIGHT>313,092,710</TD><TD ALIGN=RIGHT>300,901,610</TD>
@@ Line 146: / Line 147: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB506/ 13]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=haeCon2 haeCon2]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB506/ 13]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=haeCon2 haeCon2]</TH>
 <TH ALIGN=RIGHT>23,823</TH>
    <TD ALIGN=RIGHT>369,720,058</TD><TD ALIGN=RIGHT>345,915,897</TD>
@@ Line 155: / Line 156: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Necator_americanus/all_assembly_versions/GCA_000507365.1_N_americanus_v1/ 14]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=necAme1 necAme1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Necator_americanus/all_assembly_versions/GCA_000507365.1_N_americanus_v1/ 14]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=necAme1 necAme1]</TH>
 <TH ALIGN=RIGHT>11,865</TH>
    <TD ALIGN=RIGHT>244,088,665</TD><TD ALIGN=RIGHT>208,187,215</TD>
@@ Line 164: / Line 165: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA186477/ 15]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=panRed1 panRed1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA186477/ 15]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=panRed1 panRed1]</TH>
 <TH ALIGN=RIGHT>941</TH>
    <TD ALIGN=RIGHT>65,110,236</TD><TD ALIGN=RIGHT>62,090,108</TD>
@@ Line 173: / Line 174: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Heterorhabditis_bacteriophora/all_assembly_versions/GCA_000223415.1_Heterorhabditis_bacteriophora-7.0/ 16]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=hetBac1 hetBac1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Heterorhabditis_bacteriophora/all_assembly_versions/GCA_000223415.1_Heterorhabditis_bacteriophora-7.0/ 16]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=hetBac1 hetBac1]</TH>
 <TH ALIGN=RIGHT>1,241</TH>
    <TD ALIGN=RIGHT>76,992,477</TD><TD ALIGN=RIGHT>74,374,900</TD>
@@ Line 182: / Line 183: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ascaris_suum/all_assembly_versions/GCA_000298755.1_AscSuum_1.0/ 17]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ascSuu1 ascSuu1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Ascaris_suum/all_assembly_versions/GCA_000298755.1_AscSuum_1.0/ 17]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=ascSuu1 ascSuu1]</TH>
 <TH ALIGN=RIGHT>12,989</TH>
    <TD ALIGN=RIGHT>269,573,965</TD><TD ALIGN=RIGHT>262,604,319</TD>
@@ Line 191: / Line 192: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Strongyloides_ratti/all_assembly_versions/GCA_001040885.1_S_ratti_ED321/ 18]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=strRat2 strRat2]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Strongyloides_ratti/all_assembly_versions/GCA_001040885.1_S_ratti_ED321/ 18]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=strRat2 strRat2]</TH>
 <TH ALIGN=RIGHT>135</TH>
    <TD ALIGN=RIGHT>43,150,242</TD><TD ALIGN=RIGHT>42,896,169</TD>
@@ Line 200: / Line 201: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichinella_spiralis/all_assembly_versions/GCA_000181795.2_Trichinella_spiralis-3.7.1/ 19]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=triSpi1 triSpi1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichinella_spiralis/all_assembly_versions/GCA_000181795.2_Trichinella_spiralis-3.7.1/ 19]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=triSpi1 triSpi1]</TH>
 <TH ALIGN=RIGHT>6,864</TH>
    <TD ALIGN=RIGHT>63,542,128</TD><TD ALIGN=RIGHT>58,555,140</TD>
@@ Line 209: / Line 210: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichuris_suis/all_assembly_versions/GCA_000701005.1_Tsuis_adult_male_v1.0/ 20]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=triSui1 triSui1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Trichuris_suis/all_assembly_versions/GCA_000701005.1_Tsuis_adult_male_v1.0/ 20]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=triSui1 triSui1]</TH>
 <TH ALIGN=RIGHT>4,293</TH>
    <TD ALIGN=RIGHT>74,248,995</TD><TD ALIGN=RIGHT>71,825,189</TD>
@@ Line 218: / Line 219: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA28837/ 21]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=melInc2 melInc2]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEA28837/ 21]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=melInc2 melInc2]</TH>
 <TH ALIGN=RIGHT>2,996</TH>
    <TD ALIGN=RIGHT>86,079,534</TD><TD ALIGN=RIGHT>82,112,681</TD>
@@ Line 227: / Line 228: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS210/genomes/m_hapla/ 22]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=melHap1 melHap1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS210/genomes/m_hapla/ 22]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=melHap1 melHap1]</TH>
 <TH ALIGN=RIGHT>3,452</TH>
    <TD ALIGN=RIGHT>53,017,507</TD><TD ALIGN=RIGHT>53,017,507</TD>
@@ Line 236: / Line 237: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA10729/ 23]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=bruMal2 bruMal2]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJNA10729/ 23]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=bruMal2 bruMal2]</TH>
 <TH ALIGN=RIGHT>9,781</TH>
    <TD ALIGN=RIGHT>95,156,665</TD><TD ALIGN=RIGHT>87,397,445</TD>
@@ Line 245: / Line 246: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Onchocerca_volvulus/all_assembly_versions/GCA_000499405.1_OVOC001/ 24]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=oncVol1 oncVol1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Onchocerca_volvulus/all_assembly_versions/GCA_000499405.1_OVOC001/ 24]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=oncVol1 oncVol1]</TH>
 <TH ALIGN=RIGHT>710</TH>
    <TD ALIGN=RIGHT>97,402,144</TD><TD ALIGN=RIGHT>94,327,777</TD>
@@ Line 254: / Line 255: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Loa_loa/all_assembly_versions/GCA_000183805.3_Loa_loa_V3.1/ 25]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=loaLoa1 loaLoa1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/invertebrate/Loa_loa/all_assembly_versions/GCA_000183805.3_Loa_loa_V3.1/ 25]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=loaLoa1 loaLoa1]</TH>
 <TH ALIGN=RIGHT>5,765</TH>
    <TD ALIGN=RIGHT>91,379,422</TD><TD ALIGN=RIGHT>87,532,183</TD>
@@ Line 263: / Line 264: @@
 <TD ALIGN=RIGHT>1000</TD>
    <TD ALIGN=CENTER>loose</TD></TR>
-<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB1797/ 26]</TH><TH ALIGN=RIGHT>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=dirImm1 dirImm1]</TH>
+<TR><TH ALIGN=RIGHT>[ftp://ftp.sanger.ac.uk/pub/wormbase/releases/WS245/species/PRJEB1797/ 26]</TH><TH ALIGN=RIGHT>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=dirImm1 dirImm1]</TH>
 <TH ALIGN=RIGHT>16,062</TH>
    <TD ALIGN=RIGHT>88,323,343</TD><TD ALIGN=RIGHT>84,892,734</TD>

Ce11 26-way Genome size statistics: Difference between revisions

Latest revision as of 18:10, 3 September 2015

see also

statistics collected from UCSC 2bit files

do not edit, automatically generated table

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