miRNA display CGI


Results 1 - 20 of 38 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
16137 3' -56.4 NC_004065.1 + 83110 0.66 0.952368
Target:  5'- gCGGCggaagaUGCgCGGGGAGcugUGGGCGAg- -3'
miRNA:   3'- -GCCG------AUG-GCCCCUCuugACCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 30633 0.66 0.952368
Target:  5'- gCGGC-ACCuGGGAcGAGaUGGACGAc- -3'
miRNA:   3'- -GCCGaUGGcCCCU-CUUgACCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 225071 0.66 0.952368
Target:  5'- uGGCgGCCGcuccaGGAGAACUGGAUc--- -3'
miRNA:   3'- gCCGaUGGCc----CCUCUUGACCUGcuau -5'
16137 3' -56.4 NC_004065.1 + 137193 0.66 0.94834
Target:  5'- uGGUUACgGGGGAGGGgcuaugaaUGGGCGu-- -3'
miRNA:   3'- gCCGAUGgCCCCUCUUg-------ACCUGCuau -5'
16137 3' -56.4 NC_004065.1 + 179645 0.66 0.939622
Target:  5'- uGGCgUACUGccucuuGAGAGCUGGGCGAg- -3'
miRNA:   3'- gCCG-AUGGCcc----CUCUUGACCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 202213 0.66 0.939622
Target:  5'- aGGC-ACaucGGAGGGCUGGGCGAc- -3'
miRNA:   3'- gCCGaUGgccCCUCUUGACCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 140467 0.66 0.939622
Target:  5'- aGGUga-CGGGGGGAGaugaGGACGAg- -3'
miRNA:   3'- gCCGaugGCCCCUCUUga--CCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 33868 0.66 0.939622
Target:  5'- aGGCcggggagaugUACacgaacgaGGaGGAGGACUGGACGGa- -3'
miRNA:   3'- gCCG----------AUGg-------CC-CCUCUUGACCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 29441 0.66 0.939622
Target:  5'- aCGG-UGCCGGGGuagguggcggAGAACUuGGCGAUc -3'
miRNA:   3'- -GCCgAUGGCCCC----------UCUUGAcCUGCUAu -5'
16137 3' -56.4 NC_004065.1 + 143299 0.66 0.933477
Target:  5'- gCGGCgucggggGCCGGGGcaggaggggaagagGGGGCggGGGCGGc- -3'
miRNA:   3'- -GCCGa------UGGCCCC--------------UCUUGa-CCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 75637 0.67 0.930011
Target:  5'- gGaGCcGCCGGGGAGGA--GGugGAa- -3'
miRNA:   3'- gC-CGaUGGCCCCUCUUgaCCugCUau -5'
16137 3' -56.4 NC_004065.1 + 162614 0.67 0.908083
Target:  5'- aGGCggguCCGGGGAGAcaggcacauuACUGGccuCGGc- -3'
miRNA:   3'- gCCGau--GGCCCCUCU----------UGACCu--GCUau -5'
16137 3' -56.4 NC_004065.1 + 136403 0.67 0.908083
Target:  5'- uCGGUaGCCGGGGAGcuggucCUGGGggccCGGUGa -3'
miRNA:   3'- -GCCGaUGGCCCCUCuu----GACCU----GCUAU- -5'
16137 3' -56.4 NC_004065.1 + 136496 0.67 0.902042
Target:  5'- cCGGUaGCCGGGGA--GCUGGucCGGg- -3'
miRNA:   3'- -GCCGaUGGCCCCUcuUGACCu-GCUau -5'
16137 3' -56.4 NC_004065.1 + 143350 0.68 0.895781
Target:  5'- gGGCgagggaacACUGGGGGGGACgaGGGCGcgGg -3'
miRNA:   3'- gCCGa-------UGGCCCCUCUUGa-CCUGCuaU- -5'
16137 3' -56.4 NC_004065.1 + 148873 0.68 0.895781
Target:  5'- gCGGCgGCgGGGGGcGAGggGGACGAa- -3'
miRNA:   3'- -GCCGaUGgCCCCU-CUUgaCCUGCUau -5'
16137 3' -56.4 NC_004065.1 + 85654 0.68 0.889303
Target:  5'- uCGGCUACCacaucGGGAcGAuACUGGGCGu-- -3'
miRNA:   3'- -GCCGAUGGc----CCCU-CU-UGACCUGCuau -5'
16137 3' -56.4 NC_004065.1 + 35601 0.68 0.889303
Target:  5'- aGGCgcCCGGGGAGAACuccgucUGGaACGc-- -3'
miRNA:   3'- gCCGauGGCCCCUCUUG------ACC-UGCuau -5'
16137 3' -56.4 NC_004065.1 + 71835 0.68 0.882612
Target:  5'- gCGaGCUGCUGGuGGAGAGC-GGAgGGa- -3'
miRNA:   3'- -GC-CGAUGGCC-CCUCUUGaCCUgCUau -5'
16137 3' -56.4 NC_004065.1 + 69129 0.68 0.881931
Target:  5'- gCGGCgcgccgacaaggUGCUGGGGAagcugucGAcGCUGGACGAg- -3'
miRNA:   3'- -GCCG------------AUGGCCCCU-------CU-UGACCUGCUau -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.