miRNA display CGI


Results 1 - 18 of 18 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
399 5' -56.1 AC_000011.1 + 24383 0.66 0.533914
Target:  5'- gGGCCAGCUgcucgucGCUGAccacgggcuUGCCCucCU-CGg -3'
miRNA:   3'- -CCGGUCGGa------CGACU---------ACGGGuuGAuGC- -5'
399 5' -56.1 AC_000011.1 + 26701 0.66 0.533914
Target:  5'- aGGCCgaAGuCCaGCUGAcuaacucaggUGUCCAGCUgGCGg -3'
miRNA:   3'- -CCGG--UC-GGaCGACU----------ACGGGUUGA-UGC- -5'
399 5' -56.1 AC_000011.1 + 14214 0.66 0.522958
Target:  5'- cGGCCAGCUgaaaaccaucaUGCacaccaacAUGCCCAACgugaACGa -3'
miRNA:   3'- -CCGGUCGG-----------ACGac------UACGGGUUGa---UGC- -5'
399 5' -56.1 AC_000011.1 + 25352 0.66 0.497033
Target:  5'- uGUCGGCCUGCgucaucacccaggGGgcgauccugGCCCAAUUGCa -3'
miRNA:   3'- cCGGUCGGACGa------------CUa--------CGGGUUGAUGc -5'
399 5' -56.1 AC_000011.1 + 9721 0.67 0.459285
Target:  5'- gGGcCCGGCUUGCUgGAUGCgCAG--ACGg -3'
miRNA:   3'- -CC-GGUCGGACGA-CUACGgGUUgaUGC- -5'
399 5' -56.1 AC_000011.1 + 21474 0.67 0.459285
Target:  5'- cGGCC-GCCUGCgg--GCUCuucuGCUGCa -3'
miRNA:   3'- -CCGGuCGGACGacuaCGGGu---UGAUGc -5'
399 5' -56.1 AC_000011.1 + 3094 0.67 0.459285
Target:  5'- gGGCCagGGCUUGCgagcauggGAaGCCaCAugUACGg -3'
miRNA:   3'- -CCGG--UCGGACGa-------CUaCGG-GUugAUGC- -5'
399 5' -56.1 AC_000011.1 + 22835 0.67 0.44907
Target:  5'- aGCCAacuuCCaGCUGAUGCCCgAGCaggGCGa -3'
miRNA:   3'- cCGGUc---GGaCGACUACGGG-UUGa--UGC- -5'
399 5' -56.1 AC_000011.1 + 5403 0.67 0.438982
Target:  5'- aGGCCAcGCg-GCcGAggcGCUCAACUACGa -3'
miRNA:   3'- -CCGGU-CGgaCGaCUa--CGGGUUGAUGC- -5'
399 5' -56.1 AC_000011.1 + 20311 0.68 0.399974
Target:  5'- aGGaCCAGCC-GCggaagGcgGCCCAGUUGCGc -3'
miRNA:   3'- -CC-GGUCGGaCGa----CuaCGGGUUGAUGC- -5'
399 5' -56.1 AC_000011.1 + 3772 0.68 0.386853
Target:  5'- cGCCAGCCUgaacgaggagaaGCUGuugcugcugaugGCCCAGCU-CGa -3'
miRNA:   3'- cCGGUCGGA------------CGACua----------CGGGUUGAuGC- -5'
399 5' -56.1 AC_000011.1 + 21300 0.68 0.381317
Target:  5'- cGGCCGGCCgUGUUGAcgaugGCgcaggCCAGCUuguGCGg -3'
miRNA:   3'- -CCGGUCGG-ACGACUa----CG-----GGUUGA---UGC- -5'
399 5' -56.1 AC_000011.1 + 11823 0.68 0.381317
Target:  5'- cGCC-GCCUGCUGgcGCUCAccGC-ACGg -3'
miRNA:   3'- cCGGuCGGACGACuaCGGGU--UGaUGC- -5'
399 5' -56.1 AC_000011.1 + 17783 0.7 0.304803
Target:  5'- uGGCCAGguccaccacCCcGUUGAUGCCCGAg-GCGa -3'
miRNA:   3'- -CCGGUC---------GGaCGACUACGGGUUgaUGC- -5'
399 5' -56.1 AC_000011.1 + 12284 0.71 0.285009
Target:  5'- aGGCCGGCCugguguacaacgcgcUGCUGGagcgcgugGCCC-GCUACa -3'
miRNA:   3'- -CCGGUCGG---------------ACGACUa-------CGGGuUGAUGc -5'
399 5' -56.1 AC_000011.1 + 9481 0.71 0.267652
Target:  5'- cGGCCA-CCUGgaGAUGCgCGGCgGCGu -3'
miRNA:   3'- -CCGGUcGGACgaCUACGgGUUGaUGC- -5'
399 5' -56.1 AC_000011.1 + 12686 0.72 0.247168
Target:  5'- uGUCgAGCCUGCUGAcGCCgAACUcGCGc -3'
miRNA:   3'- cCGG-UCGGACGACUaCGGgUUGA-UGC- -5'
399 5' -56.1 AC_000011.1 + 16886 1.1 0.000336
Target:  5'- cGGCCAGCCUGCUGAUGCCCAACUACGc -3'
miRNA:   3'- -CCGGUCGGACGACUACGGGUUGAUGC- -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.