miRNA display CGI


Results 1 - 20 of 21 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
30215 3' -49.7 NC_006273.1 + 139607 0.66 0.999436
Target:  5'- -aUGGCGCCGguUGGGg-UGCGg--- -3'
miRNA:   3'- cgACCGUGGUguACCCaaACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 133608 0.66 0.999436
Target:  5'- cGCcGGCACCugGUGGcucugcUGCGUg-- -3'
miRNA:   3'- -CGaCCGUGGugUACCcaa---ACGUAaac -5'
30215 3' -49.7 NC_006273.1 + 62311 0.66 0.999436
Target:  5'- aGCaagGGCGCCGCuaacaaguUGGGgggUGCAc--- -3'
miRNA:   3'- -CGa--CCGUGGUGu-------ACCCaa-ACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 17538 0.66 0.999303
Target:  5'- cGUUGGCACC---UGGGUcaGCGUa-- -3'
miRNA:   3'- -CGACCGUGGuguACCCAaaCGUAaac -5'
30215 3' -49.7 NC_006273.1 + 44192 0.66 0.999303
Target:  5'- gGCUGGCuauCUGCGUGGGUcuaGuCAUggGg -3'
miRNA:   3'- -CGACCGu--GGUGUACCCAaa-C-GUAaaC- -5'
30215 3' -49.7 NC_006273.1 + 206510 0.66 0.999289
Target:  5'- cGCUGGCGCUugGUGcgcgacgaaggacGGgaUGCAc--- -3'
miRNA:   3'- -CGACCGUGGugUAC-------------CCaaACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 15745 0.67 0.998827
Target:  5'- cGCUGGCgaaGCCACGUGgacgaugaagaacguGGUUUGUu---- -3'
miRNA:   3'- -CGACCG---UGGUGUAC---------------CCAAACGuaaac -5'
30215 3' -49.7 NC_006273.1 + 89987 0.67 0.998733
Target:  5'- uGCUugGGCACCACGggcaagcGGGUgcGCAc--- -3'
miRNA:   3'- -CGA--CCGUGGUGUa------CCCAaaCGUaaac -5'
30215 3' -49.7 NC_006273.1 + 170802 0.68 0.996917
Target:  5'- aGCgggGGCACaaUugGUGGGUgUGCAguucUUUGa -3'
miRNA:   3'- -CGa--CCGUG--GugUACCCAaACGU----AAAC- -5'
30215 3' -49.7 NC_006273.1 + 25429 0.68 0.996193
Target:  5'- cGCgUGGCGCUGCAcaccuauggcgccgUGGGUUgGCAgcUGg -3'
miRNA:   3'- -CG-ACCGUGGUGU--------------ACCCAAaCGUaaAC- -5'
30215 3' -49.7 NC_006273.1 + 138230 0.69 0.992326
Target:  5'- aCUGGCaAUUACGUGGGU-UGCAc--- -3'
miRNA:   3'- cGACCG-UGGUGUACCCAaACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 167280 0.69 0.989939
Target:  5'- gGCgGGCAUgACG-GGGUUUGCGg--- -3'
miRNA:   3'- -CGaCCGUGgUGUaCCCAAACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 144710 0.69 0.989939
Target:  5'- aGCUGGCGCCACAuaagcgcuacuUGGGgua-CAUg-- -3'
miRNA:   3'- -CGACCGUGGUGU-----------ACCCaaacGUAaac -5'
30215 3' -49.7 NC_006273.1 + 34836 0.69 0.988545
Target:  5'- uGCUGGUuCCAUAUGGGcaUGCu---- -3'
miRNA:   3'- -CGACCGuGGUGUACCCaaACGuaaac -5'
30215 3' -49.7 NC_006273.1 + 133123 0.7 0.987006
Target:  5'- uGCUGgaGCACUGCGUGGGgcugGCGggUGc -3'
miRNA:   3'- -CGAC--CGUGGUGUACCCaaa-CGUaaAC- -5'
30215 3' -49.7 NC_006273.1 + 16253 0.7 0.981427
Target:  5'- aGCUGGUGCUcuGCAUGGGUg-GCGg--- -3'
miRNA:   3'- -CGACCGUGG--UGUACCCAaaCGUaaac -5'
30215 3' -49.7 NC_006273.1 + 204317 0.74 0.913779
Target:  5'- gGCUGGUgagcgcgaagGCCgGCAUGGGUaUGCAUUc- -3'
miRNA:   3'- -CGACCG----------UGG-UGUACCCAaACGUAAac -5'
30215 3' -49.7 NC_006273.1 + 159685 0.77 0.768785
Target:  5'- uGCUGaGCGCCGCAcGGGgcgcguaacUGCAUUUGa -3'
miRNA:   3'- -CGAC-CGUGGUGUaCCCaa-------ACGUAAAC- -5'
30215 3' -49.7 NC_006273.1 + 39777 0.78 0.708705
Target:  5'- uGCUGGCGCCGCcuUGGGgccgUGCAg--- -3'
miRNA:   3'- -CGACCGUGGUGu-ACCCaa--ACGUaaac -5'
30215 3' -49.7 NC_006273.1 + 234669 0.78 0.708705
Target:  5'- uGCUGGCGCCGCcuUGGGgccgUGCAg--- -3'
miRNA:   3'- -CGACCGUGGUGu-ACCCaa--ACGUaaac -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.