miRNA display CGI


Results 1 - 20 of 29 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
8976 3' -55.2 NC_002512.2 + 218217 0.66 0.965716
Target:  5'- gCCUCGggccgcgGCGGGCCGCggcgc-CGAUa -3'
miRNA:   3'- aGGAGUa------CGCCCGGCGgauaaaGCUA- -5'
8976 3' -55.2 NC_002512.2 + 129973 0.66 0.965716
Target:  5'- cCCUUcgGCGGGCCcCCggcgcccUCGAc -3'
miRNA:   3'- aGGAGuaCGCCCGGcGGauaa---AGCUa -5'
8976 3' -55.2 NC_002512.2 + 80052 0.66 0.965716
Target:  5'- gUCCUCGUcgcGCGGGUCGCucuccgccucgCUGUccUCGAc -3'
miRNA:   3'- -AGGAGUA---CGCCCGGCG-----------GAUAa-AGCUa -5'
8976 3' -55.2 NC_002512.2 + 17490 0.66 0.965716
Target:  5'- gUCCUCGU-C-GGCCGCCUcc-UCGAUc -3'
miRNA:   3'- -AGGAGUAcGcCCGGCGGAuaaAGCUA- -5'
8976 3' -55.2 NC_002512.2 + 148421 0.66 0.962427
Target:  5'- gCCUCcUGCGGGaCCGCCgggggaGGa -3'
miRNA:   3'- aGGAGuACGCCC-GGCGGauaaagCUa -5'
8976 3' -55.2 NC_002512.2 + 42436 0.66 0.962427
Target:  5'- -aCUCAcaCGGGCCGCCUcc-UCGGc -3'
miRNA:   3'- agGAGUacGCCCGGCGGAuaaAGCUa -5'
8976 3' -55.2 NC_002512.2 + 9673 0.66 0.958924
Target:  5'- -aCUCGUccccCGGGCCGCCg---UCGGg -3'
miRNA:   3'- agGAGUAc---GCCCGGCGGauaaAGCUa -5'
8976 3' -55.2 NC_002512.2 + 214629 0.66 0.955204
Target:  5'- cCCUCGcggggacGCGGGCCGCCUcgcagUCu-- -3'
miRNA:   3'- aGGAGUa------CGCCCGGCGGAuaa--AGcua -5'
8976 3' -55.2 NC_002512.2 + 167426 0.66 0.955204
Target:  5'- aUCUCGUGCGgcGGCaCGCCUGcgcgUUCGu- -3'
miRNA:   3'- aGGAGUACGC--CCG-GCGGAUa---AAGCua -5'
8976 3' -55.2 NC_002512.2 + 86704 0.67 0.947092
Target:  5'- cCCUCGUGCaGGGCgCGCaCUA---CGAg -3'
miRNA:   3'- aGGAGUACG-CCCG-GCG-GAUaaaGCUa -5'
8976 3' -55.2 NC_002512.2 + 117715 0.67 0.942243
Target:  5'- cUCCgcgCGUGCGGGCucgagcgccggcuCGCCg---UCGAc -3'
miRNA:   3'- -AGGa--GUACGCCCG-------------GCGGauaaAGCUa -5'
8976 3' -55.2 NC_002512.2 + 135269 0.67 0.933206
Target:  5'- -gCUCGacgagGCcuGGGCCGCCUGcUUCGGg -3'
miRNA:   3'- agGAGUa----CG--CCCGGCGGAUaAAGCUa -5'
8976 3' -55.2 NC_002512.2 + 106898 0.67 0.933206
Target:  5'- cUCCUUcgGCGGGauCCGCCUcUUccucguccucgUCGAg -3'
miRNA:   3'- -AGGAGuaCGCCC--GGCGGAuAA-----------AGCUa -5'
8976 3' -55.2 NC_002512.2 + 134705 0.67 0.928112
Target:  5'- gUCCUCucGCGGGCgcucucCGCCUAg--CGAg -3'
miRNA:   3'- -AGGAGuaCGCCCG------GCGGAUaaaGCUa -5'
8976 3' -55.2 NC_002512.2 + 134056 0.67 0.922783
Target:  5'- gCCUCcUGCGGGCCGUCg-------- -3'
miRNA:   3'- aGGAGuACGCCCGGCGGauaaagcua -5'
8976 3' -55.2 NC_002512.2 + 87850 0.68 0.91722
Target:  5'- cCCUCGcgGCGGGUCGCCggccccCGGc -3'
miRNA:   3'- aGGAGUa-CGCCCGGCGGauaaa-GCUa -5'
8976 3' -55.2 NC_002512.2 + 129035 0.68 0.911424
Target:  5'- aCCggcCGUGCGGGUCGUCUGUca-GAa -3'
miRNA:   3'- aGGa--GUACGCCCGGCGGAUAaagCUa -5'
8976 3' -55.2 NC_002512.2 + 135679 0.68 0.905396
Target:  5'- gUCCUCGUG-GGGCUGCUggggcucUUCGGc -3'
miRNA:   3'- -AGGAGUACgCCCGGCGGaua----AAGCUa -5'
8976 3' -55.2 NC_002512.2 + 162000 0.69 0.885262
Target:  5'- aCCUgGUGCGGGaugcggaCCGCCUGgc-CGAc -3'
miRNA:   3'- aGGAgUACGCCC-------GGCGGAUaaaGCUa -5'
8976 3' -55.2 NC_002512.2 + 114016 0.69 0.879017
Target:  5'- gUCgUCcgGCGGGcCCGCCUcgg-CGAa -3'
miRNA:   3'- -AGgAGuaCGCCC-GGCGGAuaaaGCUa -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.