miRNA display CGI


Results 1 - 20 of 40 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
14713 3' -53 NC_003529.1 + 17008 0.66 0.97801
Target:  5'- aCGCGCCGaGUauaAACUGaaGCGCAAGCc -3'
miRNA:   3'- cGUGCGGC-CGg--UUGAUg-UGCGUUUGu -5'
14713 3' -53 NC_003529.1 + 59721 0.66 0.97801
Target:  5'- gGCACGaCGGaucaCCAA--AUACGCAAACAu -3'
miRNA:   3'- -CGUGCgGCC----GGUUgaUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 131777 0.66 0.972843
Target:  5'- aGCACGUC-GUCGGCggGCACGCGuuCu -3'
miRNA:   3'- -CGUGCGGcCGGUUGa-UGUGCGUuuGu -5'
14713 3' -53 NC_003529.1 + 24006 0.66 0.969654
Target:  5'- uGCACGUagcguuCGGCCAccaacuuGCUGguguuccauCugGCAGGCAg -3'
miRNA:   3'- -CGUGCG------GCCGGU-------UGAU---------GugCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 52181 0.66 0.966852
Target:  5'- aCGCGCCgaGGCUuGCUuCugGCGAAUg -3'
miRNA:   3'- cGUGCGG--CCGGuUGAuGugCGUUUGu -5'
14713 3' -53 NC_003529.1 + 44214 0.67 0.956203
Target:  5'- aGCACGUugCGGCUAACUugACcCGGcGCAa -3'
miRNA:   3'- -CGUGCG--GCCGGUUGAugUGcGUU-UGU- -5'
14713 3' -53 NC_003529.1 + 43304 0.67 0.943436
Target:  5'- aCGCGCCauguugGGgCGGCUGUACGUAAACGa -3'
miRNA:   3'- cGUGCGG------CCgGUUGAUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 24840 0.67 0.943436
Target:  5'- aCACGUCGGUCA---ACACGCAGu-- -3'
miRNA:   3'- cGUGCGGCCGGUugaUGUGCGUUugu -5'
14713 3' -53 NC_003529.1 + 146103 0.68 0.939177
Target:  5'- cGCACGUauucgacaaaaaagaGGCCAACgugUACAuCGUGAGCAu -3'
miRNA:   3'- -CGUGCGg--------------CCGGUUG---AUGU-GCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 59382 0.68 0.938204
Target:  5'- gGCAauuuaGuCCGGCCGACUGCAccugugcCGCGggUu -3'
miRNA:   3'- -CGUg----C-GGCCGGUUGAUGU-------GCGUuuGu -5'
14713 3' -53 NC_003529.1 + 43127 0.68 0.9337
Target:  5'- aCACGCCGccCCAACaugGCGCGUuAACAu -3'
miRNA:   3'- cGUGCGGCc-GGUUGa--UGUGCGuUUGU- -5'
14713 3' -53 NC_003529.1 + 94030 0.68 0.933187
Target:  5'- uGCGCGauucaCGGucCCGGCUACACGUAcaucaccGACGa -3'
miRNA:   3'- -CGUGCg----GCC--GGUUGAUGUGCGU-------UUGU- -5'
14713 3' -53 NC_003529.1 + 140808 0.68 0.928459
Target:  5'- gGCACGCUGGCaguCAACUugAaugGCGAuCAa -3'
miRNA:   3'- -CGUGCGGCCG---GUUGAugUg--CGUUuGU- -5'
14713 3' -53 NC_003529.1 + 56425 0.68 0.922969
Target:  5'- uGCA-GUCGGCCAGCaACGaugaaGCGAAUAa -3'
miRNA:   3'- -CGUgCGGCCGGUUGaUGUg----CGUUUGU- -5'
14713 3' -53 NC_003529.1 + 77333 0.68 0.917228
Target:  5'- gGCGCuGUCGGCCAGC-ACAaGCAcauGGCGg -3'
miRNA:   3'- -CGUG-CGGCCGGUUGaUGUgCGU---UUGU- -5'
14713 3' -53 NC_003529.1 + 103582 0.69 0.911239
Target:  5'- cGUACuaagGCCGGCCAccACgUAUAUGUAGACu -3'
miRNA:   3'- -CGUG----CGGCCGGU--UG-AUGUGCGUUUGu -5'
14713 3' -53 NC_003529.1 + 143418 0.69 0.905003
Target:  5'- gGCAUGUCGGUguACggu-CGCGAGCAg -3'
miRNA:   3'- -CGUGCGGCCGguUGauguGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 68076 0.69 0.905003
Target:  5'- gGCGCGaCUGGUccguCAGCaACACGCuAGACAg -3'
miRNA:   3'- -CGUGC-GGCCG----GUUGaUGUGCG-UUUGU- -5'
14713 3' -53 NC_003529.1 + 21664 0.69 0.894517
Target:  5'- gGCACGCCGGgcacuuucgcccaccCCAucgucaacaucaACgcaaGCACGCAAAUAu -3'
miRNA:   3'- -CGUGCGGCC---------------GGU------------UGa---UGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 141652 0.69 0.884839
Target:  5'- uGCuuuCGgCGGCCGu---CACGCGAACAu -3'
miRNA:   3'- -CGu--GCgGCCGGUugauGUGCGUUUGU- -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.