miRNA display CGI


Results 1 - 17 of 17 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
16628 3' -49.3 NC_004156.1 + 146173 0.66 0.999835
Target:  5'- -aGUCGCagugugCACCGGugcACGGUUGUGCg-- -3'
miRNA:   3'- cgUAGCG------GUGGCU---UGCUAACAUGacu -5'
16628 3' -49.3 NC_004156.1 + 111413 0.66 0.99979
Target:  5'- -aAUCG-CACCGAAUcugGAUUGUACUu- -3'
miRNA:   3'- cgUAGCgGUGGCUUG---CUAACAUGAcu -5'
16628 3' -49.3 NC_004156.1 + 106443 0.66 0.999734
Target:  5'- gGCAaaguUgGCCAUCGAgcccgaguACGGUUGUACa-- -3'
miRNA:   3'- -CGU----AgCGGUGGCU--------UGCUAACAUGacu -5'
16628 3' -49.3 NC_004156.1 + 147291 0.67 0.999482
Target:  5'- aGC-UCGUacaCAUUGAGCGGauuaUUGUGCUGAu -3'
miRNA:   3'- -CGuAGCG---GUGGCUUGCU----AACAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 156931 0.67 0.999482
Target:  5'- -----uCCACCGGAgGAUUGUACgGAa -3'
miRNA:   3'- cguagcGGUGGCUUgCUAACAUGaCU- -5'
16628 3' -49.3 NC_004156.1 + 125239 0.67 0.999042
Target:  5'- uGCGUUGauuuuucuaccuCCACUGGGCu-UUGUGCUGAg -3'
miRNA:   3'- -CGUAGC------------GGUGGCUUGcuAACAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 164361 0.67 0.998838
Target:  5'- uGCAagGCUugUcGGCGAUggggGUGCUGAa -3'
miRNA:   3'- -CGUagCGGugGcUUGCUAa---CAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 196870 0.68 0.998598
Target:  5'- gGCuAUUGCaUAUUGGACGAUUccGUACUGAa -3'
miRNA:   3'- -CG-UAGCG-GUGGCUUGCUAA--CAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 63463 0.68 0.998317
Target:  5'- gGCAgacuacuagCGCCACUGAuCGAUacagUGUaaACUGAg -3'
miRNA:   3'- -CGUa--------GCGGUGGCUuGCUA----ACA--UGACU- -5'
16628 3' -49.3 NC_004156.1 + 69232 0.69 0.993884
Target:  5'- aGUGUCGUCGCUGAuGCGAUcgGUGCcGAc -3'
miRNA:   3'- -CGUAGCGGUGGCU-UGCUAa-CAUGaCU- -5'
16628 3' -49.3 NC_004156.1 + 154807 0.69 0.993884
Target:  5'- cCAUCGUCGCCcgucaucguuuuGAGCaGAUUGUuACUGAu -3'
miRNA:   3'- cGUAGCGGUGG------------CUUG-CUAACA-UGACU- -5'
16628 3' -49.3 NC_004156.1 + 150094 0.71 0.982877
Target:  5'- cGCAUCGCUACCGucACGAaUG-ACUa- -3'
miRNA:   3'- -CGUAGCGGUGGCu-UGCUaACaUGAcu -5'
16628 3' -49.3 NC_004156.1 + 177187 0.73 0.957384
Target:  5'- aCAaUGCCAUCGAGCGucugGUGCUGGa -3'
miRNA:   3'- cGUaGCGGUGGCUUGCuaa-CAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 158184 0.74 0.944949
Target:  5'- aGCAcaCGCgCGCCGAACGGUugcuacuagUGUAUUGAa -3'
miRNA:   3'- -CGUa-GCG-GUGGCUUGCUA---------ACAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 93689 0.74 0.937436
Target:  5'- gGCAUCGCCAUCGAGagucucaucuacgacCGAUgcuccaagGUGCUGu -3'
miRNA:   3'- -CGUAGCGGUGGCUU---------------GCUAa-------CAUGACu -5'
16628 3' -49.3 NC_004156.1 + 69773 0.77 0.816704
Target:  5'- uGCAUCGCUGCC-AACGAUU-UGCUGAu -3'
miRNA:   3'- -CGUAGCGGUGGcUUGCUAAcAUGACU- -5'
16628 3' -49.3 NC_004156.1 + 35727 1.12 0.013179
Target:  5'- aGCAUCGCCACCGAACGAUUGUACUGAu -3'
miRNA:   3'- -CGUAGCGGUGGCUUGCUAACAUGACU- -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.