miRNA display CGI


Results 1 - 20 of 35 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
27099 3' -56.5 NC_005832.1 + 74780 1.14 0.000813
Target:  5'- cGGAGAGCAGUCACCUCCUCCUGCUCCu -3'
miRNA:   3'- -CCUCUCGUCAGUGGAGGAGGACGAGG- -5'
27099 3' -56.5 NC_005832.1 + 54146 0.79 0.193737
Target:  5'- cGAGGGCGGgcagccccaGCCUCCUCCacaGCUCCa -3'
miRNA:   3'- cCUCUCGUCag-------UGGAGGAGGa--CGAGG- -5'
27099 3' -56.5 NC_005832.1 + 16342 0.75 0.330692
Target:  5'- -cAGAGUuGUCGCCUCCgccUCCUGCggCCg -3'
miRNA:   3'- ccUCUCGuCAGUGGAGG---AGGACGa-GG- -5'
27099 3' -56.5 NC_005832.1 + 9736 0.74 0.395649
Target:  5'- aGGGAGCAGaCAgCUCCagCCUGcCUCCc -3'
miRNA:   3'- cCUCUCGUCaGUgGAGGa-GGAC-GAGG- -5'
27099 3' -56.5 NC_005832.1 + 38856 0.73 0.430163
Target:  5'- uGGAaGGCcaGGUCuacgaaaGCCUCCUCgaGCUCCg -3'
miRNA:   3'- -CCUcUCG--UCAG-------UGGAGGAGgaCGAGG- -5'
27099 3' -56.5 NC_005832.1 + 961 0.73 0.449465
Target:  5'- gGGGGAGCAGacgugCGCCUCgggCUUCUGCaCCu -3'
miRNA:   3'- -CCUCUCGUCa----GUGGAG---GAGGACGaGG- -5'
27099 3' -56.5 NC_005832.1 + 30289 0.73 0.449465
Target:  5'- aGGGGAGCg--CACCgcaagCCUCUUGUUCUg -3'
miRNA:   3'- -CCUCUCGucaGUGGa----GGAGGACGAGG- -5'
27099 3' -56.5 NC_005832.1 + 96624 0.72 0.511033
Target:  5'- uGGAGAGCaccagGgacgccguggacguuGUCACCcCCUCCUGCugugUCCa -3'
miRNA:   3'- -CCUCUCG-----U---------------CAGUGGaGGAGGACG----AGG- -5'
27099 3' -56.5 NC_005832.1 + 42008 0.71 0.522977
Target:  5'- aGGAccGAGgGGUCACCUCUUCCgggggaguguccCUCCg -3'
miRNA:   3'- -CCU--CUCgUCAGUGGAGGAGGac----------GAGG- -5'
27099 3' -56.5 NC_005832.1 + 13865 0.71 0.526982
Target:  5'- uGGAGuAGCAGUCGagCUCCagcgcCCUGC-CCg -3'
miRNA:   3'- -CCUC-UCGUCAGUg-GAGGa----GGACGaGG- -5'
27099 3' -56.5 NC_005832.1 + 55726 0.71 0.547172
Target:  5'- aGGGGGGCAGUUugCUgCUgCUgGgUCCa -3'
miRNA:   3'- -CCUCUCGUCAGugGAgGAgGA-CgAGG- -5'
27099 3' -56.5 NC_005832.1 + 101997 0.71 0.547173
Target:  5'- -aGGAGCA--CAUCUCCUC-UGCUCCg -3'
miRNA:   3'- ccUCUCGUcaGUGGAGGAGgACGAGG- -5'
27099 3' -56.5 NC_005832.1 + 9531 0.71 0.55736
Target:  5'- aGGAuGGCAGUCGCUaCCUCCUGg--- -3'
miRNA:   3'- -CCUcUCGUCAGUGGaGGAGGACgagg -5'
27099 3' -56.5 NC_005832.1 + 5833 0.71 0.557361
Target:  5'- cGGAGgcGGCcuGGUCACCgucucccccgUCUUCCaGCUCCu -3'
miRNA:   3'- -CCUC--UCG--UCAGUGG----------AGGAGGaCGAGG- -5'
27099 3' -56.5 NC_005832.1 + 25733 0.7 0.618331
Target:  5'- --cGAGUAGUCugC-CCUCauguccguguacuCUGCUCCg -3'
miRNA:   3'- ccuCUCGUCAGugGaGGAG-------------GACGAGG- -5'
27099 3' -56.5 NC_005832.1 + 32547 0.69 0.668273
Target:  5'- -uGGAGCGGUC-CCguugacguugauggUCCUCCUGaugucCUCCg -3'
miRNA:   3'- ccUCUCGUCAGuGG--------------AGGAGGAC-----GAGG- -5'
27099 3' -56.5 NC_005832.1 + 63386 0.69 0.671381
Target:  5'- --cGAGC-GUCuuacugauccGCCUCCUCCUcCUCCu -3'
miRNA:   3'- ccuCUCGuCAG----------UGGAGGAGGAcGAGG- -5'
27099 3' -56.5 NC_005832.1 + 29497 0.69 0.681719
Target:  5'- aGAGAGCcGUC-CCUCC-CCUGgauauagcCUCCc -3'
miRNA:   3'- cCUCUCGuCAGuGGAGGaGGAC--------GAGG- -5'
27099 3' -56.5 NC_005832.1 + 1613 0.69 0.685843
Target:  5'- uGGAG-GCAGUugucCACCgUCUCCucggaaggggaaaagUGCUCCa -3'
miRNA:   3'- -CCUCuCGUCA----GUGGaGGAGG---------------ACGAGG- -5'
27099 3' -56.5 NC_005832.1 + 90621 0.68 0.690987
Target:  5'- --cGAGCaccucagAGUCuaGCCUCCUCa-GCUCCg -3'
miRNA:   3'- ccuCUCG-------UCAG--UGGAGGAGgaCGAGG- -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.