miRNA display CGI


Results 1 - 20 of 50 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
3114 3' -58.9 NC_001493.1 + 94680 0.66 0.817608
Target:  5'- --aCCGggUCGuG-CCCGACcgGGGGUACg -3'
miRNA:   3'- ccaGGCuuGGC-CaGGGCUG--CCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 98412 0.66 0.817608
Target:  5'- gGGUUgGAACCGaGggUCUGAUuGAGCACg -3'
miRNA:   3'- -CCAGgCUUGGC-Ca-GGGCUGcCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 3452 0.66 0.809119
Target:  5'- -cUUCGuGACUGGcgUCCCGA-GGAGCGCc -3'
miRNA:   3'- ccAGGC-UUGGCC--AGGGCUgCCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 58871 0.66 0.809119
Target:  5'- aGGgCCguGAGCCGGUCgCGAU--GGCACa -3'
miRNA:   3'- -CCaGG--CUUGGCCAGgGCUGccUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 119006 0.66 0.809119
Target:  5'- -cUUCGuGACUGGcgUCCCGA-GGAGCGCc -3'
miRNA:   3'- ccAGGC-UUGGCC--AGGGCUgCCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 81774 0.66 0.800478
Target:  5'- aGUCCGAGUCGGUCauggcucgcgCGACGGAGa-- -3'
miRNA:   3'- cCAGGCUUGGCCAGg---------GCUGCCUCgug -5'
3114 3' -58.9 NC_001493.1 + 40816 0.66 0.791693
Target:  5'- gGGUCCGAGCCG---UgGACGcGuAGCACg -3'
miRNA:   3'- -CCAGGCUUGGCcagGgCUGC-C-UCGUG- -5'
3114 3' -58.9 NC_001493.1 + 61524 0.66 0.78903
Target:  5'- cGUCCgucauccaacgcauGAGCuCGGUCuuGuugcucACGGGGCGCg -3'
miRNA:   3'- cCAGG--------------CUUG-GCCAGggC------UGCCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 87546 0.66 0.782771
Target:  5'- --cCCGGugguGCCGGUCgCGGgcucaccuccCGGGGCGCu -3'
miRNA:   3'- ccaGGCU----UGGCCAGgGCU----------GCCUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 123270 0.66 0.773721
Target:  5'- -aUCCGAG-CGGUCCCGAaagugcuccCGGGugagcccuGCACg -3'
miRNA:   3'- ccAGGCUUgGCCAGGGCU---------GCCU--------CGUG- -5'
3114 3' -58.9 NC_001493.1 + 89565 0.67 0.764552
Target:  5'- uGGUCCGcacggucacgaGACCGaacGUCgUGACGG-GCGCc -3'
miRNA:   3'- -CCAGGC-----------UUGGC---CAGgGCUGCCuCGUG- -5'
3114 3' -58.9 NC_001493.1 + 87013 0.67 0.764552
Target:  5'- aGUaCCGGugCGGgcaCCGAUGucGAGCGCa -3'
miRNA:   3'- cCA-GGCUugGCCag-GGCUGC--CUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 11298 0.67 0.75527
Target:  5'- gGGUCauCGAGCCcuGGUCCCG--GGAGCc- -3'
miRNA:   3'- -CCAG--GCUUGG--CCAGGGCugCCUCGug -5'
3114 3' -58.9 NC_001493.1 + 126852 0.67 0.75527
Target:  5'- gGGUCauCGAGCCcuGGUCCCG--GGAGCc- -3'
miRNA:   3'- -CCAG--GCUUGG--CCAGGGCugCCUCGug -5'
3114 3' -58.9 NC_001493.1 + 31457 0.67 0.75527
Target:  5'- gGGUCCcauacggaAGCCGGUCaacaGugGGAGCu- -3'
miRNA:   3'- -CCAGGc-------UUGGCCAGgg--CugCCUCGug -5'
3114 3' -58.9 NC_001493.1 + 85072 0.67 0.75527
Target:  5'- aGUCCGAucacucACUGG-CCaCGGCGGA-CACg -3'
miRNA:   3'- cCAGGCU------UGGCCaGG-GCUGCCUcGUG- -5'
3114 3' -58.9 NC_001493.1 + 106314 0.67 0.745885
Target:  5'- aGGUCgGGuACCGGUUucaCCG-CGGAGUcgGCg -3'
miRNA:   3'- -CCAGgCU-UGGCCAG---GGCuGCCUCG--UG- -5'
3114 3' -58.9 NC_001493.1 + 41938 0.67 0.745885
Target:  5'- --aCCGAGCCGGgcgagUCCaCGGCGccGCACu -3'
miRNA:   3'- ccaGGCUUGGCC-----AGG-GCUGCcuCGUG- -5'
3114 3' -58.9 NC_001493.1 + 88988 0.67 0.745885
Target:  5'- --aCCGAGCCGGaguuccucgaCCCGAUGuucgaGGGCACg -3'
miRNA:   3'- ccaGGCUUGGCCa---------GGGCUGC-----CUCGUG- -5'
3114 3' -58.9 NC_001493.1 + 64590 0.67 0.736406
Target:  5'- ---aCGAGCCGcG-CCCGugGcGAGUACa -3'
miRNA:   3'- ccagGCUUGGC-CaGGGCugC-CUCGUG- -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.