miRNA display CGI


Results 1 - 20 of 28 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
16637 3' -45.6 NC_004156.1 + 136155 0.66 0.999999
Target:  5'- gGCCGCCgAGGGAaugggauagagUGCAUugUCGAUa -3'
miRNA:   3'- gUGGCGGgUUUCUaaa--------ACGUA--AGUUG- -5'
16637 3' -45.6 NC_004156.1 + 75760 0.66 0.999999
Target:  5'- aGCUGCgCGAguuGGAUcggUGCAUUCAGg -3'
miRNA:   3'- gUGGCGgGUU---UCUAaa-ACGUAAGUUg -5'
16637 3' -45.6 NC_004156.1 + 73353 0.66 0.999999
Target:  5'- aGCCGUCCucAGuAUgguacucGCGUUCGACa -3'
miRNA:   3'- gUGGCGGGuuUC-UAaaa----CGUAAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 165882 0.66 0.999999
Target:  5'- gACgCGCUCGAAGugUUUGguUUCGAUg -3'
miRNA:   3'- gUG-GCGGGUUUCuaAAACguAAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 18720 0.66 0.999999
Target:  5'- cUACCGCCCAuAGAUg-UGaCcgUgAGCg -3'
miRNA:   3'- -GUGGCGGGUuUCUAaaAC-GuaAgUUG- -5'
16637 3' -45.6 NC_004156.1 + 210189 0.66 0.999999
Target:  5'- gCACUGCCCGAucuggcAGAggccGCAgccgCAGCa -3'
miRNA:   3'- -GUGGCGGGUU------UCUaaaaCGUaa--GUUG- -5'
16637 3' -45.6 NC_004156.1 + 175145 0.66 0.999998
Target:  5'- -gUCGUCCAGAGAg--UGCAUcuUCAuGCa -3'
miRNA:   3'- guGGCGGGUUUCUaaaACGUA--AGU-UG- -5'
16637 3' -45.6 NC_004156.1 + 31882 0.66 0.999998
Target:  5'- aGCCGCCCu--GGU--UGCAgagugCAACc -3'
miRNA:   3'- gUGGCGGGuuuCUAaaACGUaa---GUUG- -5'
16637 3' -45.6 NC_004156.1 + 81186 0.66 0.999998
Target:  5'- aCGCCGgCCAcugcagugacuaGGGAcacgUUUGgAUUCAGCg -3'
miRNA:   3'- -GUGGCgGGU------------UUCUa---AAACgUAAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 186518 0.66 0.999997
Target:  5'- -uCUGCCCAuAGAUUUgaaGCAcUUUGACa -3'
miRNA:   3'- guGGCGGGUuUCUAAAa--CGU-AAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 180834 0.67 0.999995
Target:  5'- --gCGUCCAAAGugaUUGCAUgCAACa -3'
miRNA:   3'- gugGCGGGUUUCuaaAACGUAaGUUG- -5'
16637 3' -45.6 NC_004156.1 + 127495 0.67 0.999995
Target:  5'- aCGCUgauGCCUcagauuauAAAGAUUUUGCucUUCAACu -3'
miRNA:   3'- -GUGG---CGGG--------UUUCUAAAACGu-AAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 169888 0.67 0.999993
Target:  5'- cCACUGCCCGgcuuGAGcAUcUUGCcgUCGAg -3'
miRNA:   3'- -GUGGCGGGU----UUC-UAaAACGuaAGUUg -5'
16637 3' -45.6 NC_004156.1 + 207161 0.67 0.999993
Target:  5'- cUACCGCCaaggguGGAGGUUUUGaauacUUCGGCa -3'
miRNA:   3'- -GUGGCGGg-----UUUCUAAAACgu---AAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 102177 0.67 0.999993
Target:  5'- aCACUGCCUuuAGAUg--GCA--CAACa -3'
miRNA:   3'- -GUGGCGGGuuUCUAaaaCGUaaGUUG- -5'
16637 3' -45.6 NC_004156.1 + 159485 0.67 0.99999
Target:  5'- aCGCUGCU---AGAgUUUGCAUUCAAa -3'
miRNA:   3'- -GUGGCGGguuUCUaAAACGUAAGUUg -5'
16637 3' -45.6 NC_004156.1 + 19025 0.67 0.999988
Target:  5'- uCGCUGCUCAAcgaacugaccagcgcAGAUUUUGCcgcCAGCg -3'
miRNA:   3'- -GUGGCGGGUU---------------UCUAAAACGuaaGUUG- -5'
16637 3' -45.6 NC_004156.1 + 132336 0.68 0.999973
Target:  5'- aUACCGUCC--GGGUUU--CAUUCAACa -3'
miRNA:   3'- -GUGGCGGGuuUCUAAAacGUAAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 38794 0.68 0.999951
Target:  5'- aACCaCCCAAGGAUaugaGCGuUUCAACa -3'
miRNA:   3'- gUGGcGGGUUUCUAaaa-CGU-AAGUUG- -5'
16637 3' -45.6 NC_004156.1 + 20370 0.68 0.999951
Target:  5'- gCACCGCCUAAAGGa---GCucaaUCGGCa -3'
miRNA:   3'- -GUGGCGGGUUUCUaaaaCGua--AGUUG- -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.