miRNA display CGI


Results 1 - 20 of 69 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
11439 3' -52.2 NC_003085.1 + 185 0.7 0.593761
Target:  5'- cGCagCAGCCACaggggGUgGC--CAUGACGCa -3'
miRNA:   3'- -CGa-GUCGGUGa----CAgCGuuGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 826 0.71 0.549001
Target:  5'- -gUCGGCCugUGgCGCAAgGUGAagGCa -3'
miRNA:   3'- cgAGUCGGugACaGCGUUgUACUg-CG- -5'
11439 3' -52.2 NC_003085.1 + 2323 0.66 0.830542
Target:  5'- cGCcacCGGCCGCcgcuucaucgGUUGCGACAUccgggaGGCGCa -3'
miRNA:   3'- -CGa--GUCGGUGa---------CAGCGUUGUA------CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 2462 0.79 0.195955
Target:  5'- uGCgUCAGCCACUGaCGCAuaGUGugGCc -3'
miRNA:   3'- -CG-AGUCGGUGACaGCGUugUACugCG- -5'
11439 3' -52.2 NC_003085.1 + 3057 0.67 0.811562
Target:  5'- cGC-CAGaCCACUGcgaugucaccgCGCAcaGCGUGACGa -3'
miRNA:   3'- -CGaGUC-GGUGACa----------GCGU--UGUACUGCg -5'
11439 3' -52.2 NC_003085.1 + 3327 0.68 0.750201
Target:  5'- aUUCAGgCGCUgGUCGCcGCAcagacGACGCu -3'
miRNA:   3'- cGAGUCgGUGA-CAGCGuUGUa----CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 3702 0.72 0.484078
Target:  5'- --gCGGCCACgcagCGCGACGUGccACGCg -3'
miRNA:   3'- cgaGUCGGUGaca-GCGUUGUAC--UGCG- -5'
11439 3' -52.2 NC_003085.1 + 5143 0.66 0.830542
Target:  5'- cGCcCAGgCAUccaUGUCGCAACAccuCGCg -3'
miRNA:   3'- -CGaGUCgGUG---ACAGCGUUGUacuGCG- -5'
11439 3' -52.2 NC_003085.1 + 7772 0.75 0.358051
Target:  5'- -aUCAGCCAUcGUCGCGGCGa-GCGCa -3'
miRNA:   3'- cgAGUCGGUGaCAGCGUUGUacUGCG- -5'
11439 3' -52.2 NC_003085.1 + 8182 0.67 0.811562
Target:  5'- ---gAGCCGCUGggCGCuguGCAUGGCccGCc -3'
miRNA:   3'- cgagUCGGUGACa-GCGu--UGUACUG--CG- -5'
11439 3' -52.2 NC_003085.1 + 8436 0.91 0.033609
Target:  5'- uGCUCGGCCAgcagcagccguccCUGUCGCucuACAUGACGCg -3'
miRNA:   3'- -CGAGUCGGU-------------GACAGCGu--UGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 8557 0.67 0.807667
Target:  5'- aGCUC-GUCACggcaggucuugagGUCGCGGCGcagGAUGCc -3'
miRNA:   3'- -CGAGuCGGUGa------------CAGCGUUGUa--CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 8632 0.66 0.821157
Target:  5'- aGCcCGGCCGCcGUCaGguACAggccggccggGACGCg -3'
miRNA:   3'- -CGaGUCGGUGaCAG-CguUGUa---------CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 10205 0.68 0.750201
Target:  5'- uGCUCacccgcgggaGGCCGCcagaaauucGUCGCAG-GUGGCGCa -3'
miRNA:   3'- -CGAG----------UCGGUGa--------CAGCGUUgUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 11487 0.67 0.811562
Target:  5'- ----cGCCGCaGaCGCuGACAUGGCGCa -3'
miRNA:   3'- cgaguCGGUGaCaGCG-UUGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 12592 0.68 0.728596
Target:  5'- uGCUCguGGuCCgACUGaCGCG-CGUGGCGCc -3'
miRNA:   3'- -CGAG--UC-GG-UGACaGCGUuGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 12939 0.71 0.571276
Target:  5'- -gUCAGUCGCcGUCGCuauACGUGACu- -3'
miRNA:   3'- cgAGUCGGUGaCAGCGu--UGUACUGcg -5'
11439 3' -52.2 NC_003085.1 + 13210 0.66 0.839704
Target:  5'- --aCGGUCGCUGggaacggggUGCGGCgAUGACGUg -3'
miRNA:   3'- cgaGUCGGUGACa--------GCGUUG-UACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 14894 0.66 0.830542
Target:  5'- uGUUCGccGCCAUUGaggaguugCGCAccggccgccagcGCGUGGCGCu -3'
miRNA:   3'- -CGAGU--CGGUGACa-------GCGU------------UGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 14932 0.72 0.473606
Target:  5'- cGCUCgcGGCCGCUGU-GUuGC-UGACGCu -3'
miRNA:   3'- -CGAG--UCGGUGACAgCGuUGuACUGCG- -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.