annotate test-data/expression_galaxy.html @ 1:40dc77f3730c draft

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author rnateam
date Wed, 04 Feb 2015 12:45:52 -0500
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1 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01//EN"
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2 "http://www.w3.org/TR/html4/strict.dtd">
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3 <html>
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4 <head>
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5 <title>miRDeep2</title>
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6 <!-- CSS code -->
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129 </style>
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130
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131 </head>
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132 <body>
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133 <table border="0" width="100%">
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134 <colgroup>
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135 <col width="5*">
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136 <col width="5*">
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137 </colgroup>
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138 <tr height="200" valign="top">
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139 <td><font face="Times New Roman" size="8">
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140 <b><a href="http://www.mdc-berlin.de/en/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep/index.html" target="_blank" style="color:Black;text-decoration:none" title="miRDeep2 homepage at MDC-Berlin" >miRDeep2</a></b>
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141
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142
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143 <br>
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144 <br>
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145 </font></td>
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146 <td> <a href="http://www.mdc-berlin.de/en/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep/index.html" target="_blank" >
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147 <img src="http://www.mdc-berlin.de/de/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep/mirdeep.jpg" style="border-style: none" name="precursor miRNA" title="miRDeep2 homepage at MDC-Berlin" align=right alt="miRDeep home"/></a></td>
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148 </tr>
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149 </table>
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150
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151 <br>
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152 <br>
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153 <br><h2></h2><br>
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154 <font face="Times New Roman" size="2">
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155 <table border="1">
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156 <th><a href="" class="tooltip3">miRBase precursor id<span>Clicking this field will display a pdf of the structure and read signature of the miRNA.</span></a></th>
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157
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158 <th><a href="" class="tooltip3">total read count<span>this is the sum of read counts for the mature and star miRNAs.</span></a></th>
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159
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160 <th><a href="" class="tooltip3">mature read count(s)<span>this is the number of reads that map to the miRNA hairpin and are contained in the sequence covered by the mature miRNA, including 2 nts upstream and 5 nts downstream. If more than one mature sequence is given this will be a comma separated list. In parenthesis are normalized read counts shown.</span></a></th>
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161
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162 <th><a href="" class="tooltip3">star read count<span>this is the number of reads that map to the miRNA hairpin and are contained in the sequence covered by the star miRNA, including 2 nts upstream and 5 nts downstream. This field is empty unless a reference star miRNA was given as input to quantifier.pl. If more than one mature sequence is given this will be a comman separated list</span></a></th>
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163
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164 <th><a href="http://www.ncbi.nlm.nih.gov/entrez/utils/fref.fcgi?PrId=3051&itool=AbstractPlus-def&uid=15217813&nlmid=9808944&db=pubmed&url=http://bioinformatics.oxfordjournals.org/cgi/pmidlookup?view=long&pmid=15217813" target="blank"class="tooltip3">remaining reads<span>this is the number of reads that did not map to any of the mature and star sequences</span></a></th>
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165
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166 <th><a href="" class="tooltip3">UCSC browser<span>if a species name was input to miRDeep2, then clicking this field will initiate a UCSC blat search of the miRNA precursor sequence against the reference genome.</span></a></th>
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167
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168 <th><a href="" class="tooltip3">NCBI blastn<span>clicking this field will initiate a NCBI blastn search of the miRNA precursor sequence against the nr/nt database (non-redundant collection of all NCBI nucleotide sequences).</span></a></th>
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169
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170 <th><a href="" class="tooltip3">miRBase mature sequence(s)<span>this is/are the mature miRNA sequence(s) input to quantifier.pl.</span></a></th>
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171
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172 <th><a href="" class="tooltip3">miRBase star sequence(s)<span>this is/are the star miRNA sequence(s) input to quantifier.pl. This field is empty unless a reference star miRNA was given as input to quantifier.pl.</span></a></th>
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173
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174 <th><a href="" class="tooltip4">miRBase precursor sequence<span>this is the precursor miRNA sequence input to quantifier.pl.</span></a></th>
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175
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176 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-37.pdf">cel-mir-37</a></td>
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177 <td>118250</td>
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178 <td>
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179
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180
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181 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
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182 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-37" target="_blank">cel-miR-37</a></td><td><nobr>118131.00</nobr></td><td><nobr>676208.96</nobr></td></tr>
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183 </table>
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184
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185 </td>
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186
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187
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188 <td>
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189 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
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190 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
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191 </table>
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192
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193 </td>
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194
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196
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197 <td nowrap="nowrap">119</td>
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198 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
199 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=uucuagaaacccuuggaccaguguggguguccguugcggugcuacauucucuaaucuguaucaccgggugaacacuugcagugguccucgugguuucu&JOB_TITLE=cel-mir-37&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
200 <td><table><tr><td>ucaccgggugaacacuugcagu</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
201 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
202 <td>uucuagaaacccuuggaccaguguggguguccguugcggugcuacauucucuaaucuguaucaccgggugaacacuugcagugguccucgugguuucu</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
203 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
204 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-40.pdf">cel-mir-40</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
205 <td>32947</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
206 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
207
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
208
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
209 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
210 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-40" target="_blank">cel-miR-40</a></td><td><nobr>32878.00</nobr></td><td><nobr>188201.22</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
211 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
212
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
213 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
214
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
215
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
216 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
217 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
218 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
219 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
220
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
221 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
222
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
223
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
224
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
225 <td nowrap="nowrap">69</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
226 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
227 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=uccuguccgcaccucaguggauguaugccaugaugauaagauaucagaaauccuaucaccggguguacaucagcuaaggugcggguacaggu&JOB_TITLE=cel-mir-40&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
228 <td><table><tr><td>ucaccggguguacaucagcuaa</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
229 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
230 <td>uccuguccgcaccucaguggauguaugccaugaugauaagauaucagaaauccuaucaccggguguacaucagcuaaggugcggguacaggu</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
231 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
232 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-36.pdf">cel-mir-36</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
233 <td>14535</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
234 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
235
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
236
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
237 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
238 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-36" target="_blank">cel-miR-36</a></td><td><nobr>14483.00</nobr></td><td><nobr>82904.02</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
239 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
240
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
241 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
242
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
243
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
244 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
245 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
246 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
247 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
248
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
249 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
250
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
251
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
252
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
253 <td nowrap="nowrap">52</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
254 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
255 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=caccgcugucggggaaccgcgccaauuuucgcuucagugcuagaccauccaaagugucuaucaccgggugaaaauucgcauggguccccgacgcgga&JOB_TITLE=cel-mir-36&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
256 <td><table><tr><td>ucaccgggugaaaauucgcaug</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
257 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
258 <td>caccgcugucggggaaccgcgccaauuuucgcuucagugcuagaccauccaaagugucuaucaccgggugaaaauucgcauggguccccgacgcgga</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
259 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
260 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-229.pdf">cel-mir-229</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
261 <td>4000</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
262 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
263
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
264
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
265 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
266 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-229" target="_blank">cel-miR-229</a></td><td><nobr>4000.00</nobr></td><td><nobr>22896.92</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
267 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
268
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
269 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
270
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
271
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
272 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
273 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
274 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
275 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
276
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
277 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
278
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
279
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
280
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
281 <td nowrap="nowrap">0</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
282 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
283 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=cgccggcaaugacacugguuaucuuuuccaucguggaaugccccccauugauuuuuuccccuuuucggggggaaaaaauuggaaacgagaaagguaucgggugucauagccggcg&JOB_TITLE=cel-mir-229&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
284 <td><table><tr><td>aaugacacugguuaucuuuuccaucg</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
285 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
286 <td>cgccggcaaugacacugguuaucuuuuccaucguggaaugccccccauugauuuuuuccccuuuucggggggaaaaaauuggaaacgagaaagguaucgggugucauagccggcg</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
287 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
288 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-39.pdf">cel-mir-39</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
289 <td>3852</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
290 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
291
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
292
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
293 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
294 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-39" target="_blank">cel-miR-39</a></td><td><nobr>2994.00</nobr></td><td><nobr>17138.34</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
295 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
296
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
297 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
298
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
299
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
300 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
301 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
302 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
303 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
304
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
305 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
306
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
307
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
308
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
309 <td nowrap="nowrap">858</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
310 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
311 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=uauaccgagagcccagcugauuucgucuugguaauaagcucgucauugagauuaucaccggguguaaaucagcuuggcucugguguc&JOB_TITLE=cel-mir-39&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
312 <td><table><tr><td>ucaccggguguaaaucagcuug</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
313 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
314 <td>uauaccgagagcccagcugauuucgucuugguaauaagcucgucauugagauuaucaccggguguaaaucagcuuggcucugguguc</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
315 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
316 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-38.pdf">cel-mir-38</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
317 <td>2131</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
318 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
319
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
320
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
321 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
322 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-38" target="_blank">cel-miR-38</a></td><td><nobr>2123.00</nobr></td><td><nobr>12152.54</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
323 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
324
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
325 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
326
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
327
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
328 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
329 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
330 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
331 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
332
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
333 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
334
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
335
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
336
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
337 <td nowrap="nowrap">8</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
338 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
339 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=ucugugagccagguccuguuccgguuuuuuccguggugauaacgcauccaaaagucucuaucaccgggagaaaaacuggaguaggaccugugacucau&JOB_TITLE=cel-mir-38&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
340 <td><table><tr><td>ucaccgggagaaaaacuggagu</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
341 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
342 <td>ucugugagccagguccuguuccgguuuuuuccguggugauaacgcauccaaaagucucuaucaccgggagaaaaacuggaguaggaccugugacucau</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
343 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
344 <tr><td nowrap="nowrap"><a href="pdfs_galaxy/cel-mir-41.pdf">cel-mir-41</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
345 <td>164</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
346 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
347
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
348
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
349 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
350 <tr><td nowrap="nowrap"><a href="http://www.mirbase.org/cgi-bin/query.pl?terms=cel-mir-41" target="_blank">cel-miR-41</a></td><td><nobr>87.00</nobr></td><td><nobr>498.01</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
351 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
352
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
353 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
354
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
355
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
356 <td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
357 <table><tr><td WIDTH=55>id</td><td>seq</td><td>seq(norm)</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
358 <tr><td nowrap="nowrap"><a>na</a></td><td><nobr>0</nobr></td><td><nobr>0</nobr></td></tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
359 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
360
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
361 </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
362
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
363
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
364
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
365 <td nowrap="nowrap">77</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
366 <td> - </td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
367 <td><a href=http://blast.ncbi.nlm.nih.gov/Blast.cgi?QUERY=gggucccagagaccuuggugguuuuucucugcagugauagauacuucuaacaacucgcuaucaccgggugaaaaaucaccuaggucuggagccuccu&JOB_TITLE=cel-mir-41&db=nucleotide&QUERY_FROM=&QUERY_TO=&QUERYFILE=&GENETIC_CODE=1&SUBJECTS=&stype=nucleotide&SUBJECTS_FROM=&SUBJECTS_TO=&SUBJECTFILE=&DBTYPE=gc&DATABASE=nr&EQ_MENU=&NUM_ORG=1&EQ_TEXT=&BLAST_PROGRAMS=blastn&PHI_PATTERN=&MAX_NUM_SEQ=100&SHORT_QUERY_ADJUST=on&EXPECT=10&WORD_SIZE=7&MATRIX_NAME=PAM30&MATCH_SCORES=2,-3&GAPCOSTS=5+2&COMPOSITION_BASED_STATISTICS=0&FILTER=L&REPEATS=repeat_9606&FILTER=m&TEMPLATE_LENGTH=0&TEMPLATE_TYPE=0&PSSM=&I_THRESH=&SHOW_OVERVIEW=true&SHOW_LINKOUT=true&GET_SEQUENCE=auauauaauauauauauauuauaa&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&ALIGNMENT_VIEW=Pairwise&MASK_CHAR=2&MASK_COLOR=1&DESCRIPTIONS=100&ALIGNMENTS=100&NEW_VIEW=true&OLD_BLAST=false&NCBI_GI=false&SHOW_CDS_FEATURE=false&NUM_OVERVIEW=100&FORMAT_EQ_TEXT=&FORMAT_ORGANISM=&EXPECT_LOW=&EXPECT_HIGH=&QUERY_INDEX=&CLIENT=web&SERVICE=plain&CMD=request&PAGE=Nucleotides&PROGRAM=blastn&MEGABLAST=&RUN_PSIBLAST=&TWO_HITS=&DEFAULT_PROG=megaBlast&WWW_BLAST_TYPE=&DB_ABBR=&SAVED_PSSM=&SELECTED_PROG_TYPE=blastn&SAVED_SEARCH=true&BLAST_SPEC=&QUERY_BELIEVE_DEFLINE=&DB_DIR_PREFIX=&USER_DATABASE=&USER_WORD_SIZE=&USER_MATCH_SCORES=&USER_FORMAT_DEFAULTS=&NO_COMMON=&NUM_DIFFS=2&NUM_OPTS_DIFFS=1&UNIQ_DEFAULTS_NAME=A_SearchDefaults_1Mn7ZD_2Sq4_1Z58HQ5Jb_23tpbD_167y9p&PAGE_TYPE=BlastSearch&USER_DEFAULT_PROG_TYPE=blastn&USER_DEFAULT_MATCH_SCORES=3. target="_blank">blast</a></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
368 <td><table><tr><td>ucaccgggugaaaaaucaccua</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
369 <td><table><tr><td>-</td></tr></table></td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
370 <td>gggucccagagaccuuggugguuuuucucugcagugauagauacuucuaacaacucgcuaucaccgggugaaaaaucaccuaggucuggagccuccu</td>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
371 </tr>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
372 </table>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
373 </body>
2c039fc73f1f Imported from capsule None
rnateam
parents:
diff changeset
374 </html>