miRNA display CGI


Results 1 - 20 of 31 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
23045 3' -62.4 NC_005178.1 + 11876 0.66 0.303237
Target:  5'- cGCGGUcaCCAGGgcgGCCagGGUGUCCuGGUc -3'
miRNA:   3'- -CGCCG--GGUCCag-CGG--CCAUAGG-CCGa -5'
23045 3' -62.4 NC_005178.1 + 30861 0.66 0.261532
Target:  5'- cCGGCCCAGGUCgagGCCGcGaccgcugCCaGGCg -3'
miRNA:   3'- cGCCGGGUCCAG---CGGC-Caua----GG-CCGa -5'
23045 3' -62.4 NC_005178.1 + 20464 0.66 0.273531
Target:  5'- uUGGCCagguuGGUCGCCuGGgcguccagggCCGGCUu -3'
miRNA:   3'- cGCCGGgu---CCAGCGG-CCaua-------GGCCGA- -5'
23045 3' -62.4 NC_005178.1 + 12816 0.66 0.274892
Target:  5'- cGCGGCgCAGGgcgUCGCgGGUuuccuUCgGGUg -3'
miRNA:   3'- -CGCCGgGUCC---AGCGgCCAu----AGgCCGa -5'
23045 3' -62.4 NC_005178.1 + 32081 0.66 0.281773
Target:  5'- -aGGgUCAGGUCGUCGGcGUgggUCGGCa -3'
miRNA:   3'- cgCCgGGUCCAGCGGCCaUA---GGCCGa -5'
23045 3' -62.4 NC_005178.1 + 31651 0.66 0.303237
Target:  5'- gGCGGaCCAGGUCcagGCCGG----CGGCg -3'
miRNA:   3'- -CGCCgGGUCCAG---CGGCCauagGCCGa -5'
23045 3' -62.4 NC_005178.1 + 11762 0.66 0.303237
Target:  5'- cGUGGCCCgagccauggGGGUucCGCCGcaggCCGGCc -3'
miRNA:   3'- -CGCCGGG---------UCCA--GCGGCcauaGGCCGa -5'
23045 3' -62.4 NC_005178.1 + 31448 0.66 0.295946
Target:  5'- aGCuGCuCCAGGaacCGCUGGcggCCGGCUc -3'
miRNA:   3'- -CGcCG-GGUCCa--GCGGCCauaGGCCGA- -5'
23045 3' -62.4 NC_005178.1 + 9659 0.66 0.268145
Target:  5'- cGCGGCCgGuGGcuUCGCCGag--CCGGCc -3'
miRNA:   3'- -CGCCGGgU-CC--AGCGGCcauaGGCCGa -5'
23045 3' -62.4 NC_005178.1 + 20326 0.67 0.242491
Target:  5'- cGCGGCCCu-GUCGCUGGaagaaGGCa -3'
miRNA:   3'- -CGCCGGGucCAGCGGCCauaggCCGa -5'
23045 3' -62.4 NC_005178.1 + 32917 0.67 0.236405
Target:  5'- aGCGG-CguGGUCGCCGGcaugCCgauGGCUg -3'
miRNA:   3'- -CGCCgGguCCAGCGGCCaua-GG---CCGA- -5'
23045 3' -62.4 NC_005178.1 + 22877 0.67 0.236405
Target:  5'- cGUGGCCCAGGcuaUCGCCG--AUgCGGaCg -3'
miRNA:   3'- -CGCCGGGUCC---AGCGGCcaUAgGCC-Ga -5'
23045 3' -62.4 NC_005178.1 + 9443 0.68 0.213333
Target:  5'- cCGGCCUAgccgggacGGUCuGCCGGacguggugGUCCGGUa -3'
miRNA:   3'- cGCCGGGU--------CCAG-CGGCCa-------UAGGCCGa -5'
23045 3' -62.4 NC_005178.1 + 9095 0.68 0.213333
Target:  5'- cGCGGCauugcuCCAGGUCgaaGCCGGcaa-CGGCg -3'
miRNA:   3'- -CGCCG------GGUCCAG---CGGCCauagGCCGa -5'
23045 3' -62.4 NC_005178.1 + 31267 0.68 0.204659
Target:  5'- gGCGaacGUCCAGGcgaugauccgaUUGCCGGUgaugaccaggaccagGUCCGGCUc -3'
miRNA:   3'- -CGC---CGGGUCC-----------AGCGGCCA---------------UAGGCCGA- -5'
23045 3' -62.4 NC_005178.1 + 17331 0.69 0.182369
Target:  5'- cGgGGCCgAGGUCGCCcagcucGGcagcccgcgCCGGCUg -3'
miRNA:   3'- -CgCCGGgUCCAGCGG------CCaua------GGCCGA- -5'
23045 3' -62.4 NC_005178.1 + 20761 0.69 0.187238
Target:  5'- cUGGCCCAGGUagcucuucaaGCCGGccaaGUCCuuGGCg -3'
miRNA:   3'- cGCCGGGUCCAg---------CGGCCa---UAGG--CCGa -5'
23045 3' -62.4 NC_005178.1 + 1516 0.69 0.181888
Target:  5'- gGCGGCguaguugcacucaCCAGGUauaGCgCGGg--CCGGCUg -3'
miRNA:   3'- -CGCCG-------------GGUCCAg--CG-GCCauaGGCCGA- -5'
23045 3' -62.4 NC_005178.1 + 34883 0.69 0.168427
Target:  5'- gGCGGCgCCA---CGCCGGUugucgCCGGCa -3'
miRNA:   3'- -CGCCG-GGUccaGCGGCCAua---GGCCGa -5'
23045 3' -62.4 NC_005178.1 + 5210 0.7 0.155448
Target:  5'- cCGGCgCCAGGUUGCgGGcGUCCuccagagacacuGGCUg -3'
miRNA:   3'- cGCCG-GGUCCAGCGgCCaUAGG------------CCGA- -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.