miRNA display CGI


Results 1 - 20 of 27 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
12426 3' -58.8 NC_003324.1 + 35883 0.66 0.581039
Target:  5'- uGGCu-CCGgucaaCCCCCAGaUCGCCau-CGc -3'
miRNA:   3'- -CCGuuGGCa----GGGGGUC-AGCGGguuGC- -5'
12426 3' -58.8 NC_003324.1 + 8168 0.66 0.576833
Target:  5'- cGGCGACCGUggcagccauggucaCCUCCucgacgaAGUUGCCCu-CGu -3'
miRNA:   3'- -CCGUUGGCA--------------GGGGG-------UCAGCGGGuuGC- -5'
12426 3' -58.8 NC_003324.1 + 43244 0.66 0.570536
Target:  5'- aGGgGGCCG-CCUgCagGGUCGCCUGGCa -3'
miRNA:   3'- -CCgUUGGCaGGGgG--UCAGCGGGUUGc -5'
12426 3' -58.8 NC_003324.1 + 47635 0.66 0.570536
Target:  5'- cGGCGACCGggCCgCCA-UCGUCgAGCu -3'
miRNA:   3'- -CCGUUGGCa-GGgGGUcAGCGGgUUGc -5'
12426 3' -58.8 NC_003324.1 + 7345 0.66 0.570536
Target:  5'- aGCGACCGUgaUCUCGGUCGaaguuuCCCAGCc -3'
miRNA:   3'- cCGUUGGCAg-GGGGUCAGC------GGGUUGc -5'
12426 3' -58.8 NC_003324.1 + 32896 0.66 0.56008
Target:  5'- aGGCGGCUG-CCCgCCAugCGCCgAACa -3'
miRNA:   3'- -CCGUUGGCaGGG-GGUcaGCGGgUUGc -5'
12426 3' -58.8 NC_003324.1 + 23153 0.66 0.549677
Target:  5'- cGGCAAaCGUCUUgCCGG-CGCCCA-CGg -3'
miRNA:   3'- -CCGUUgGCAGGG-GGUCaGCGGGUuGC- -5'
12426 3' -58.8 NC_003324.1 + 15649 0.66 0.539335
Target:  5'- uGGCGACgG--CCCCGGcgCGCUCGAUGa -3'
miRNA:   3'- -CCGUUGgCagGGGGUCa-GCGGGUUGC- -5'
12426 3' -58.8 NC_003324.1 + 25464 0.66 0.539335
Target:  5'- uGGCGAgcaugcuuugcUCGU-CCCgGGUCGCCgGGCGc -3'
miRNA:   3'- -CCGUU-----------GGCAgGGGgUCAGCGGgUUGC- -5'
12426 3' -58.8 NC_003324.1 + 2626 0.67 0.52906
Target:  5'- cGGCGuGCCGUCUgCCGuccGUCGCCUguucgucgguGGCGu -3'
miRNA:   3'- -CCGU-UGGCAGGgGGU---CAGCGGG----------UUGC- -5'
12426 3' -58.8 NC_003324.1 + 41440 0.67 0.518858
Target:  5'- cGGCuacuucauuaAGCCG-CCCCCAG-CGCCgAuuuCGa -3'
miRNA:   3'- -CCG----------UUGGCaGGGGGUCaGCGGgUu--GC- -5'
12426 3' -58.8 NC_003324.1 + 29506 0.67 0.508735
Target:  5'- uGGCGACCGgUUCCCGG-CGCgCAuCGa -3'
miRNA:   3'- -CCGUUGGCaGGGGGUCaGCGgGUuGC- -5'
12426 3' -58.8 NC_003324.1 + 28602 0.67 0.488745
Target:  5'- cGGCuuCCG-CCCgCuGUCGCCCu-CGu -3'
miRNA:   3'- -CCGuuGGCaGGGgGuCAGCGGGuuGC- -5'
12426 3' -58.8 NC_003324.1 + 30352 0.68 0.469132
Target:  5'- gGGCGACCGUgCCUUGGcccgcaucaUCGCCgAugGu -3'
miRNA:   3'- -CCGUUGGCAgGGGGUC---------AGCGGgUugC- -5'
12426 3' -58.8 NC_003324.1 + 34401 0.68 0.469132
Target:  5'- aGGCGaacucgccGCCGUCCUCgGcaucggugauGUCGgCCGACGg -3'
miRNA:   3'- -CCGU--------UGGCAGGGGgU----------CAGCgGGUUGC- -5'
12426 3' -58.8 NC_003324.1 + 2443 0.68 0.469132
Target:  5'- cGGCGGCuUGUUCCCCaccaacuucaAGUUGgCCUAGCGc -3'
miRNA:   3'- -CCGUUG-GCAGGGGG----------UCAGC-GGGUUGC- -5'
12426 3' -58.8 NC_003324.1 + 54488 0.68 0.440492
Target:  5'- cGGCAGCgGUCCCggggaguugCCGuUCGCCUGAUa -3'
miRNA:   3'- -CCGUUGgCAGGG---------GGUcAGCGGGUUGc -5'
12426 3' -58.8 NC_003324.1 + 32458 0.68 0.437683
Target:  5'- cGGCAGCCaugCCCUC-GUCGCCUucgccggcagccucGGCGa -3'
miRNA:   3'- -CCGUUGGca-GGGGGuCAGCGGG--------------UUGC- -5'
12426 3' -58.8 NC_003324.1 + 33763 0.68 0.431168
Target:  5'- -aCAGCaCGUCUCCCAGUCaCCgCGGCa -3'
miRNA:   3'- ccGUUG-GCAGGGGGUCAGcGG-GUUGc -5'
12426 3' -58.8 NC_003324.1 + 9754 0.68 0.421961
Target:  5'- gGGCGuauCCGcCcggCCCCAcGcCGCCCAGCGc -3'
miRNA:   3'- -CCGUu--GGCaG---GGGGU-CaGCGGGUUGC- -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.