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
28173 3' -59.1 NC_005887.1 + 42005 0.66 0.464815
Target:  5'- uGCGgcccacGUC-GAGUGUcGCCGcGGCGCGc -3'
miRNA:   3'- -CGCa-----UAGuCUCACGcCGGC-CCGCGCu -5'
28173 3' -59.1 NC_005887.1 + 33877 0.66 0.464815
Target:  5'- aCGUGUCGucgccGAGcgguUGC-GCCGGGCGCu- -3'
miRNA:   3'- cGCAUAGU-----CUC----ACGcCGGCCCGCGcu -5'
28173 3' -59.1 NC_005887.1 + 29748 0.66 0.454966
Target:  5'- uGCGUcagCAcgccGAGcgucGCGGCCGGGUcgGCGGa -3'
miRNA:   3'- -CGCAua-GU----CUCa---CGCCGGCCCG--CGCU- -5'
28173 3' -59.1 NC_005887.1 + 11101 0.66 0.445231
Target:  5'- gGCGcAUCGGcuGGUGCgcgcgaagcuGGCCGaGGCGCc- -3'
miRNA:   3'- -CGCaUAGUC--UCACG----------CCGGC-CCGCGcu -5'
28173 3' -59.1 NC_005887.1 + 36891 0.66 0.435614
Target:  5'- uGCGUcgUGGuGGaUGCGGCaggagugccagCGGGCGCGu -3'
miRNA:   3'- -CGCAuaGUC-UC-ACGCCG-----------GCCCGCGCu -5'
28173 3' -59.1 NC_005887.1 + 15020 0.66 0.435614
Target:  5'- cGCGUGgcgCAGucgacGUGGCCGGacgaGUGCGAg -3'
miRNA:   3'- -CGCAUa--GUCuca--CGCCGGCC----CGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 17326 0.66 0.426117
Target:  5'- uGCGcUAcCGGcuGGccgGCGGCCGccGGCGCGAg -3'
miRNA:   3'- -CGC-AUaGUC--UCa--CGCCGGC--CCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 2697 0.67 0.416745
Target:  5'- aGCGUA-CGGGcGgcaaGCGGCCGagccGCGCGAc -3'
miRNA:   3'- -CGCAUaGUCU-Ca---CGCCGGCc---CGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 24125 0.67 0.38055
Target:  5'- cGCGUGUCGugcGGUGUGaagcGCCGGGCuuCGAg -3'
miRNA:   3'- -CGCAUAGUc--UCACGC----CGGCCCGc-GCU- -5'
28173 3' -59.1 NC_005887.1 + 16736 0.67 0.371835
Target:  5'- cGCGaucaaGUCGGAuuacaUGCGGCagacgauGGGCGCGAu -3'
miRNA:   3'- -CGCa----UAGUCUc----ACGCCGg------CCCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 17808 0.67 0.371835
Target:  5'- gGCGcc-CGGccgaaGGUGCGGCCGcGCGUGAu -3'
miRNA:   3'- -CGCauaGUC-----UCACGCCGGCcCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 36842 0.68 0.354818
Target:  5'- uGCGgc-CGGuGcUGCGGCCGGuGCuGCGGc -3'
miRNA:   3'- -CGCauaGUCuC-ACGCCGGCC-CG-CGCU- -5'
28173 3' -59.1 NC_005887.1 + 28701 0.68 0.353146
Target:  5'- cGCGUucugcacGUCGgugcugcucggcuGAGUGCGGCCGccGCGCGc -3'
miRNA:   3'- -CGCA-------UAGU-------------CUCACGCCGGCc-CGCGCu -5'
28173 3' -59.1 NC_005887.1 + 1679 0.68 0.346517
Target:  5'- cGCGccagGUgCAGgauGGUGCGGCCGGugaucgGCGCGc -3'
miRNA:   3'- -CGCa---UA-GUC---UCACGCCGGCC------CGCGCu -5'
28173 3' -59.1 NC_005887.1 + 5815 0.69 0.299668
Target:  5'- gGCGgcgAUC-GAGU-CGGCgCGGGuCGCGAa -3'
miRNA:   3'- -CGCa--UAGuCUCAcGCCG-GCCC-GCGCU- -5'
28173 3' -59.1 NC_005887.1 + 15616 0.69 0.292353
Target:  5'- gGCGUcgcgCAGcAG-GCGGCCGGGCucgcCGAu -3'
miRNA:   3'- -CGCAua--GUC-UCaCGCCGGCCCGc---GCU- -5'
28173 3' -59.1 NC_005887.1 + 41600 0.69 0.285179
Target:  5'- gGCGgccCAG-GUGCGGCgGccGGCGCGGc -3'
miRNA:   3'- -CGCauaGUCuCACGCCGgC--CCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 38098 0.73 0.169487
Target:  5'- aGCaguUCAGAcugcGUGCGGCCGagcgucGGCGCGAg -3'
miRNA:   3'- -CGcauAGUCU----CACGCCGGC------CCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 22086 0.73 0.162321
Target:  5'- gGCGgccGUCGGGGcccuucuguggaaacUGCuGCCGGGUGCGAu -3'
miRNA:   3'- -CGCa--UAGUCUC---------------ACGcCGGCCCGCGCU- -5'
28173 3' -59.1 NC_005887.1 + 14700 0.73 0.152083
Target:  5'- uCGUcgCGGcGG-GCgGGCCGGGCGCGGc -3'
miRNA:   3'- cGCAuaGUC-UCaCG-CCGGCCCGCGCU- -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.