miRNA display CGI


Results 1 - 12 of 12 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
28425 3' -59.1 NC_005946.1 + 28843 0.66 0.685145
Target:  5'- -aGGCCGUguaGGCGUCGUCGCaagUCAGc- -3'
miRNA:   3'- gaCCGGCGg--UCGUAGCGGUG---AGUCuc -5'
28425 3' -59.1 NC_005946.1 + 37023 0.66 0.674875
Target:  5'- aUGGCCGCCAGCuucuUUGCUgAgUCGaAGg -3'
miRNA:   3'- gACCGGCGGUCGu---AGCGG-UgAGUcUC- -5'
28425 3' -59.1 NC_005946.1 + 82709 0.66 0.654237
Target:  5'- cCUGGCCGCaaa-GUCgGCCACggcagcucacgUCGGAGg -3'
miRNA:   3'- -GACCGGCGgucgUAG-CGGUG-----------AGUCUC- -5'
28425 3' -59.1 NC_005946.1 + 88234 0.66 0.643887
Target:  5'- cCUGGUCGUCGcGCAgucUG-CGCUCGGAGg -3'
miRNA:   3'- -GACCGGCGGU-CGUa--GCgGUGAGUCUC- -5'
28425 3' -59.1 NC_005946.1 + 33199 0.67 0.623165
Target:  5'- --aGCCcCCAGUA-CGCCGCcUCAGAGu -3'
miRNA:   3'- gacCGGcGGUCGUaGCGGUG-AGUCUC- -5'
28425 3' -59.1 NC_005946.1 + 42352 0.67 0.612812
Target:  5'- -gGGCCGUCGggccccGCGUCGuCCGCuaUCAGAu -3'
miRNA:   3'- gaCCGGCGGU------CGUAGC-GGUG--AGUCUc -5'
28425 3' -59.1 NC_005946.1 + 21806 0.67 0.591125
Target:  5'- aUGGCgccauagugcucgCGCUGGCcgAUCGCCugUCGGAc -3'
miRNA:   3'- gACCG-------------GCGGUCG--UAGCGGugAGUCUc -5'
28425 3' -59.1 NC_005946.1 + 22178 0.68 0.571619
Target:  5'- gCUGGCUGCCcuGGCcgCGgCCGCUCcccuGAc -3'
miRNA:   3'- -GACCGGCGG--UCGuaGC-GGUGAGu---CUc -5'
28425 3' -59.1 NC_005946.1 + 76364 0.68 0.561413
Target:  5'- -cGGUC-CCAGCGgggCGCCuggauCUCAGGGc -3'
miRNA:   3'- gaCCGGcGGUCGUa--GCGGu----GAGUCUC- -5'
28425 3' -59.1 NC_005946.1 + 16190 0.68 0.521154
Target:  5'- -aGGCCGCCgaGGCAgccauggaCGCCAagagcgCAGAGa -3'
miRNA:   3'- gaCCGGCGG--UCGUa-------GCGGUga----GUCUC- -5'
28425 3' -59.1 NC_005946.1 + 86567 0.73 0.291215
Target:  5'- -aGGCCGCCAGCG-CGCUcCUCucGAGc -3'
miRNA:   3'- gaCCGGCGGUCGUaGCGGuGAGu-CUC- -5'
28425 3' -59.1 NC_005946.1 + 81699 1.08 0.001039
Target:  5'- cCUGGCCGCCAGCAUCGCCACUCAGAGu -3'
miRNA:   3'- -GACCGGCGGUCGUAGCGGUGAGUCUC- -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.