miRNA display CGI


Results 1 - 20 of 86 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
29003 3' -56.6 NC_006146.1 + 136002 0.66 0.885581
Target:  5'- aACCguaagggagGggGGGUAggGGGGGgaGGGAu -3'
miRNA:   3'- -UGGa--------CuuUCCGUuaCCCCCagCCCUu -5'
29003 3' -56.6 NC_006146.1 + 32172 0.66 0.885581
Target:  5'- aACCguaaggaggGggGGGUAggGGGGGgaGGGAu -3'
miRNA:   3'- -UGGa--------CuuUCCGUuaCCCCCagCCCUu -5'
29003 3' -56.6 NC_006146.1 + 132849 0.66 0.87128
Target:  5'- gGCCUcucaucacagGAGAGGU---GGGGGUgGGGGu -3'
miRNA:   3'- -UGGA----------CUUUCCGuuaCCCCCAgCCCUu -5'
29003 3' -56.6 NC_006146.1 + 144768 0.66 0.870542
Target:  5'- gGCCUGAuggacccggugggGAGaCAAgcugagGGGGGcCGGGGAg -3'
miRNA:   3'- -UGGACU-------------UUCcGUUa-----CCCCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 147846 0.66 0.870542
Target:  5'- gGCCUGAuggacccggugggGAGaCAAgcugagGGGGGcCGGGGAg -3'
miRNA:   3'- -UGGACU-------------UUCcGUUa-----CCCCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 150924 0.66 0.870542
Target:  5'- gGCCUGAuggacccggugggGAGaCAAgcugagGGGGGcCGGGGAg -3'
miRNA:   3'- -UGGACU-------------UUCcGUUa-----CCCCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 154002 0.66 0.870542
Target:  5'- gGCCUGAuggacccggugggGAGaCAAgcugagGGGGGcCGGGGAg -3'
miRNA:   3'- -UGGACU-------------UUCcGUUa-----CCCCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 157080 0.66 0.870542
Target:  5'- gGCCUGAuggacccggugggGAGaCAAgcugagGGGGGcCGGGGAg -3'
miRNA:   3'- -UGGACU-------------UUCcGUUa-----CCCCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 139099 0.66 0.863802
Target:  5'- cGCCUGGAguuGGGUugcGUGGGGuGUCaauuGGGGg -3'
miRNA:   3'- -UGGACUU---UCCGu--UACCCC-CAG----CCCUu -5'
29003 3' -56.6 NC_006146.1 + 53548 0.66 0.863802
Target:  5'- gACC-GAGGGGCuucUGGGGGUgaCGGuGAu -3'
miRNA:   3'- -UGGaCUUUCCGuu-ACCCCCA--GCC-CUu -5'
29003 3' -56.6 NC_006146.1 + 49677 0.66 0.863802
Target:  5'- cACUUGAGcauucCGAUGGcGGGUCGGGGc -3'
miRNA:   3'- -UGGACUUucc--GUUACC-CCCAGCCCUu -5'
29003 3' -56.6 NC_006146.1 + 147684 0.66 0.863802
Target:  5'- gGCCUGGGAGGCugguucUGGGcuGGacUUGGGAc -3'
miRNA:   3'- -UGGACUUUCCGuu----ACCC--CC--AGCCCUu -5'
29003 3' -56.6 NC_006146.1 + 137400 0.66 0.863802
Target:  5'- gGCCgGGAGGGUGcUGGGGuccCGGGGAc -3'
miRNA:   3'- -UGGaCUUUCCGUuACCCCca-GCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 126003 0.66 0.856114
Target:  5'- gGCUUGGgagugGGGGCGGUGGgcuucugcugcuGGGcCGGGAGg -3'
miRNA:   3'- -UGGACU-----UUCCGUUACC------------CCCaGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 89581 0.66 0.856114
Target:  5'- --aUGAGGGGgaugcCGAUGGGGGU-GGGAGu -3'
miRNA:   3'- uggACUUUCC-----GUUACCCCCAgCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 163617 0.66 0.856114
Target:  5'- gGCCUcuccccGGAAGGC-GUGGGGcaggauuuuuGUUGGGAAu -3'
miRNA:   3'- -UGGA------CUUUCCGuUACCCC----------CAGCCCUU- -5'
29003 3' -56.6 NC_006146.1 + 48566 0.67 0.848221
Target:  5'- gACCuUGGAaucauccgGGGCcucGGGGGUCaGGGAGg -3'
miRNA:   3'- -UGG-ACUU--------UCCGuuaCCCCCAG-CCCUU- -5'
29003 3' -56.6 NC_006146.1 + 41147 0.67 0.848221
Target:  5'- cCCUGGAGGGaCGA-GGacuGGUCGGGGu -3'
miRNA:   3'- uGGACUUUCC-GUUaCCc--CCAGCCCUu -5'
29003 3' -56.6 NC_006146.1 + 11139 0.67 0.848221
Target:  5'- uACCUG-GGGGCGGUGGuGGUCacGGAGg -3'
miRNA:   3'- -UGGACuUUCCGUUACCcCCAGc-CCUU- -5'
29003 3' -56.6 NC_006146.1 + 24208 0.67 0.848221
Target:  5'- gGCCUGcGAGGUucuGUuGGGGcCGGGGc -3'
miRNA:   3'- -UGGACuUUCCGu--UAcCCCCaGCCCUu -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.