miRNA display CGI


Results 1 - 20 of 25 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
33420 3' -55.7 NC_007605.1 + 109256 0.66 0.936348
Target:  5'- gCGGUCUCUGGcCCaacGGC-CACCUUu -3'
miRNA:   3'- aGUUAGAGACCuGGcu-CCGaGUGGGA- -5'
33420 3' -55.7 NC_007605.1 + 155285 0.66 0.920687
Target:  5'- uUCAcgC-C-GGACCGAGaGgUCGCCCa -3'
miRNA:   3'- -AGUuaGaGaCCUGGCUC-CgAGUGGGa -5'
33420 3' -55.7 NC_007605.1 + 167035 0.66 0.914992
Target:  5'- aCAuuugaUCUGGACCuu-GCUCGCCCa -3'
miRNA:   3'- aGUuag--AGACCUGGcucCGAGUGGGa -5'
33420 3' -55.7 NC_007605.1 + 37343 0.66 0.912648
Target:  5'- cUCGGUCUUcaucagggacaagGGGCUGGGGaCUCACCa- -3'
miRNA:   3'- -AGUUAGAGa------------CCUGGCUCC-GAGUGGga -5'
33420 3' -55.7 NC_007605.1 + 45543 0.67 0.896497
Target:  5'- cCAGUCUCcGGGCCG-GGUcCggGCCCg -3'
miRNA:   3'- aGUUAGAGaCCUGGCuCCGaG--UGGGa -5'
33420 3' -55.7 NC_007605.1 + 123609 0.67 0.896497
Target:  5'- --uGUCUCgcgGGGCCGGGGC-CGCgUUg -3'
miRNA:   3'- aguUAGAGa--CCUGGCUCCGaGUGgGA- -5'
33420 3' -55.7 NC_007605.1 + 9909 0.67 0.88987
Target:  5'- ---cUCUUugUGGACgGGGGCUCccggGCCCa -3'
miRNA:   3'- aguuAGAG--ACCUGgCUCCGAG----UGGGa -5'
33420 3' -55.7 NC_007605.1 + 33692 0.67 0.883017
Target:  5'- gUCGGUCUCucggaucgaguUGGGCCGGGGauaCACUCc -3'
miRNA:   3'- -AGUUAGAG-----------ACCUGGCUCCga-GUGGGa -5'
33420 3' -55.7 NC_007605.1 + 47597 0.67 0.875944
Target:  5'- cCAggCUcCUGGAuCUGGGGCUgGCCUg -3'
miRNA:   3'- aGUuaGA-GACCU-GGCUCCGAgUGGGa -5'
33420 3' -55.7 NC_007605.1 + 51826 0.67 0.875944
Target:  5'- -uGGUCUCcaccagGGACCGgaaGGGCUCagaguGCCCg -3'
miRNA:   3'- agUUAGAGa-----CCUGGC---UCCGAG-----UGGGa -5'
33420 3' -55.7 NC_007605.1 + 42691 0.67 0.875944
Target:  5'- aUAAUCUCUagugaccgugaGGuCCGAGGCUCGgCgCUa -3'
miRNA:   3'- aGUUAGAGA-----------CCuGGCUCCGAGUgG-GA- -5'
33420 3' -55.7 NC_007605.1 + 65866 0.68 0.871595
Target:  5'- ----cCUCUGGACCccgaacucugcccagGGGGCUCagauuuccaGCCCUa -3'
miRNA:   3'- aguuaGAGACCUGG---------------CUCCGAG---------UGGGA- -5'
33420 3' -55.7 NC_007605.1 + 160028 0.68 0.845538
Target:  5'- ----cCUCUGGGCCGcccGGCcUCGCCUUc -3'
miRNA:   3'- aguuaGAGACCUGGCu--CCG-AGUGGGA- -5'
33420 3' -55.7 NC_007605.1 + 53540 0.69 0.82069
Target:  5'- ---cUCUCUGGACacugguguuugUGGGGCUCACUUUu -3'
miRNA:   3'- aguuAGAGACCUG-----------GCUCCGAGUGGGA- -5'
33420 3' -55.7 NC_007605.1 + 51248 0.69 0.82069
Target:  5'- cCAGUCcCUGGGCCugccaGGGGC-CACCUUc -3'
miRNA:   3'- aGUUAGaGACCUGG-----CUCCGaGUGGGA- -5'
33420 3' -55.7 NC_007605.1 + 73190 0.69 0.803261
Target:  5'- cCAAUgUCUGcGugCGAgccgGGCUUGCCCUu -3'
miRNA:   3'- aGUUAgAGAC-CugGCU----CCGAGUGGGA- -5'
33420 3' -55.7 NC_007605.1 + 86082 0.69 0.803261
Target:  5'- aUCAGgaccCUGGGCCGGGGCcucCAUCCa -3'
miRNA:   3'- -AGUUaga-GACCUGGCUCCGa--GUGGGa -5'
33420 3' -55.7 NC_007605.1 + 167005 0.69 0.785215
Target:  5'- aCAccGUCUCUGGGCCGu-GCUgCACCUc -3'
miRNA:   3'- aGU--UAGAGACCUGGCucCGA-GUGGGa -5'
33420 3' -55.7 NC_007605.1 + 108930 0.7 0.766623
Target:  5'- -gGAUCUUUGGACUGGGGgauUUgGCCCa -3'
miRNA:   3'- agUUAGAGACCUGGCUCC---GAgUGGGa -5'
33420 3' -55.7 NC_007605.1 + 36719 0.7 0.728083
Target:  5'- gUCAc-CUCUGucacaACCGAGGCUUACCCc -3'
miRNA:   3'- -AGUuaGAGACc----UGGCUCCGAGUGGGa -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.