Mercurial > repos > iuc > virannot_rps2tsv

<html>
<head>
<title>rps2tree</title><script type="text/javascript" src="https://www.gstatic.com/charts/loader.js"></script>
<script type="text/javascript">
google.charts.load('current', {'packages':['table']});
google.charts.setOnLoadCallback(pfam02123_pfam02123_RdRP_4);
function pfam02123_pfam02123_RdRP_4() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-267');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',2258,77,'Viruses Wuhan insect virus 27','ds2020-267_16,ds2020-267_4,ds2020-328_97,ds2020-328_98'],
['OTU_2',7516,0,'Viruses Orthornavirae Duplornaviricota Chrymotiviricetes Ghabrivirales Quadriviridae Quadrivirus Rosellinia necatrix quadrivirus 1','ds2020-267_2'],
['OTU_3',1161,0,'Viruses Orthornavirae Duplornaviricota Chrymotiviricetes Ghabrivirales Quadriviridae Quadrivirus Rosellinia necatrix quadrivirus 1','ds2020-267_6'],
['OTU_4',0,77,'Viruses Orthornavirae Duplornaviricota Chrymotiviricetes Ghabrivirales Totiviridae Totivirus Scheffersomyces segobiensis virus L','ds2020-328_109']
]);
var table = new google.visualization.Table(document.getElementById('pfam02123_pfam02123_RdRP_4_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam00680_pfam00680_RdRP_1);
function pfam00680_pfam00680_RdRP_1() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-267');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',912,'Viruses Cryphonectria parasitica bipartite mycovirus 1','ds2020-267_21'],
['OTU_2',3373,'Viruses Penicillium aurantiogriseum partiti-like virus','ds2020-267_8']
]);
var table = new google.visualization.Table(document.getElementById('pfam00680_pfam00680_RdRP_1_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam00665_pfam00665_rve);
function pfam00665_pfam00665_rve() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',104,'Unknown','ds2020-328_118']
]);
var table = new google.visualization.Table(document.getElementById('pfam00665_pfam00665_rve_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam01443_pfam01443_Viral_helicase1);
function pfam01443_pfam01443_Viral_helicase1() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',164,'Viruses Orthornavirae Kitrinoviricota Alsuviricetes Martellivirales Bromoviridae Ilarvirus Prune dwarf virus','ds2020-328_26']
]);
var table = new google.visualization.Table(document.getElementById('pfam01443_pfam01443_Viral_helicase1_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam00078_pfam00078_RVT_1);
function pfam00078_pfam00078_RVT_1() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',0,'Unknown','ds2020-328_43']
]);
var table = new google.visualization.Table(document.getElementById('pfam00078_pfam00078_RVT_1_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam01787_pfam01787_Ilar_coat);
function pfam01787_pfam01787_Ilar_coat() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',1825,'Viruses Orthornavirae Kitrinoviricota Alsuviricetes Martellivirales Bromoviridae Ilarvirus Prune dwarf virus','ds2020-328_7']
]);
var table = new google.visualization.Table(document.getElementById('pfam01787_pfam01787_Ilar_coat_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
google.charts.setOnLoadCallback(pfam01573_pfam01573_Bromo_MP);
function pfam01573_pfam01573_Bromo_MP() {
var data = new google.visualization.DataTable();
data.addColumn('string', '#OTU_name');
data.addColumn('number', 'ds2020-328');
data.addColumn('string', 'taxonomy');
data.addColumn('string', 'contigs_list');
data.addRows([
['OTU_1',1825,'Viruses Orthornavirae Kitrinoviricota Alsuviricetes Martellivirales Bromoviridae Ilarvirus Prune dwarf virus','ds2020-328_7']
]);
var table = new google.visualization.Table(document.getElementById('pfam01573_pfam01573_Bromo_MP_div'));
table.draw(data, {showRowNumber: false, width: '70%', height: '70%'});

}
</script>
</head>
<div style="text-align:center">
<h1 align=center>rps2tree</h1>
<body>
<h2>pfam02123 pfam02123_RdRP_4</h2>
<p>pfam02123, RdRP_4, Viral RNA-directed RNA-polymerase.  This family includes RNA-dependent RNA polymerase proteins (RdRPs) from Luteovirus, Totivirus and Rotavirus.</br></p>
<div id="pfam02123_pfam02123_RdRP_4_div"></div>
</br>
</br>
<img src=pfam02123_RdRP_4/tree.dnd.png href="pfam02123_RdRP_4/tree.dnd.png">
</br>
<a href="pfam02123_RdRP_4/seq_aligned.final_tree.fa">pfam02123_RdRP_4/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam02123_RdRP_4/otu_cluster.csv">pfam02123_RdRP_4/otu_cluster.csv</a>
</br>
<a href="pfam02123_RdRP_4/cluster_nb_reads_files.tab">pfam02123_RdRP_4/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam02123_RdRP_4/identity_matrix.csv">pfam02123_RdRP_4/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam00680 pfam00680_RdRP_1</h2>
<p>pfam00680, RdRP_1, RNA dependent RNA polymerase.  </br></p>
<div id="pfam00680_pfam00680_RdRP_1_div"></div>
</br>
</br>
<img src=pfam00680_RdRP_1/tree.dnd.png href="pfam00680_RdRP_1/tree.dnd.png">
</br>
<a href="pfam00680_RdRP_1/seq_aligned.final_tree.fa">pfam00680_RdRP_1/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam00680_RdRP_1/otu_cluster.csv">pfam00680_RdRP_1/otu_cluster.csv</a>
</br>
<a href="pfam00680_RdRP_1/cluster_nb_reads_files.tab">pfam00680_RdRP_1/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam00680_RdRP_1/identity_matrix.csv">pfam00680_RdRP_1/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam00665 pfam00665_rve</h2>
<p>pfam00665, rve, Integrase core domain.  Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.</br></p>
<div id="pfam00665_pfam00665_rve_div"></div>
</br>
</br>
<img src=pfam00665_rve/tree.dnd.png href="pfam00665_rve/tree.dnd.png">
</br>
<a href="pfam00665_rve/seq_aligned.final_tree.fa">pfam00665_rve/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam00665_rve/otu_cluster.csv">pfam00665_rve/otu_cluster.csv</a>
</br>
<a href="pfam00665_rve/cluster_nb_reads_files.tab">pfam00665_rve/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam00665_rve/identity_matrix.csv">pfam00665_rve/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam01443 pfam01443_Viral_helicase1</h2>
<p>pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase.  Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.</br></p>
<div id="pfam01443_pfam01443_Viral_helicase1_div"></div>
</br>
</br>
<img src=pfam01443_Viral_helicase1/tree.dnd.png href="pfam01443_Viral_helicase1/tree.dnd.png">
</br>
<a href="pfam01443_Viral_helicase1/seq_aligned.final_tree.fa">pfam01443_Viral_helicase1/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam01443_Viral_helicase1/otu_cluster.csv">pfam01443_Viral_helicase1/otu_cluster.csv</a>
</br>
<a href="pfam01443_Viral_helicase1/cluster_nb_reads_files.tab">pfam01443_Viral_helicase1/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam01443_Viral_helicase1/identity_matrix.csv">pfam01443_Viral_helicase1/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam00078 pfam00078_RVT_1</h2>
<p>pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase).  A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.</br></p>
<div id="pfam00078_pfam00078_RVT_1_div"></div>
</br>
</br>
<img src=pfam00078_RVT_1/tree.dnd.png href="pfam00078_RVT_1/tree.dnd.png">
</br>
<a href="pfam00078_RVT_1/seq_aligned.final_tree.fa">pfam00078_RVT_1/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam00078_RVT_1/otu_cluster.csv">pfam00078_RVT_1/otu_cluster.csv</a>
</br>
<a href="pfam00078_RVT_1/cluster_nb_reads_files.tab">pfam00078_RVT_1/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam00078_RVT_1/identity_matrix.csv">pfam00078_RVT_1/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam01787 pfam01787_Ilar_coat</h2>
<p>pfam01787, Ilar_coat, Ilarvirus coat protein.  This family consists of various coat proteins from the ilarviruses part of the Bromoviridae, members include apple mosaic virus and prune dwarf virus. The ilarvirus coat protein is required to initiate replication of the viral genome in host plants. Members of the Bromoviridae have a positive stand ssRNA genome with no DNA stage in there replication.</br></p>
<div id="pfam01787_pfam01787_Ilar_coat_div"></div>
</br>
</br>
<img src=pfam01787_Ilar_coat/tree.dnd.png href="pfam01787_Ilar_coat/tree.dnd.png">
</br>
<a href="pfam01787_Ilar_coat/seq_aligned.final_tree.fa">pfam01787_Ilar_coat/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam01787_Ilar_coat/otu_cluster.csv">pfam01787_Ilar_coat/otu_cluster.csv</a>
</br>
<a href="pfam01787_Ilar_coat/cluster_nb_reads_files.tab">pfam01787_Ilar_coat/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam01787_Ilar_coat/identity_matrix.csv">pfam01787_Ilar_coat/identity_matrix.csv</a>
</br>
</br>
<hr>
<h2>pfam01573 pfam01573_Bromo_MP</h2>
<p>pfam01573, Bromo_MP, Bromovirus movement protein.  </br></p>
<div id="pfam01573_pfam01573_Bromo_MP_div"></div>
</br>
</br>
<img src=pfam01573_Bromo_MP/tree.dnd.png href="pfam01573_Bromo_MP/tree.dnd.png">
</br>
<a href="pfam01573_Bromo_MP/seq_aligned.final_tree.fa">pfam01573_Bromo_MP/seq_aligned.final_tree.fa</a>
</br>
<a href="pfam01573_Bromo_MP/otu_cluster.csv">pfam01573_Bromo_MP/otu_cluster.csv</a>
</br>
<a href="pfam01573_Bromo_MP/cluster_nb_reads_files.tab">pfam01573_Bromo_MP/cluster_nb_reads_files.tab</a>
</br>
<a href="pfam01573_Bromo_MP/identity_matrix.csv">pfam01573_Bromo_MP/identity_matrix.csv</a>
</br>
</br>
<hr>
</body>
</div>
</html>
author	iuc
date	Wed, 21 Aug 2024 13:13:28 +0000
parents	bbaa89f070f4
children