miRNA display CGI


Results 1 - 20 of 36 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
5462 3' -58.6 NC_001798.1 + 101844 0.66 0.858354
Target:  5'- gGGagGCGUGG-GUCCCGGcGGCggCGg- -3'
miRNA:   3'- -CCagCGCGCCaUAGGGCC-CUGa-GCag -5'
5462 3' -58.6 NC_001798.1 + 58283 0.66 0.858354
Target:  5'- gGGUC-CGUGagGUCCCGGGGCgCGa- -3'
miRNA:   3'- -CCAGcGCGCcaUAGGGCCCUGaGCag -5'
5462 3' -58.6 NC_001798.1 + 75349 0.66 0.850812
Target:  5'- cGGUCGCcguaccCGGcgcaCCCGGGGCUguuggagcucugCGUCa -3'
miRNA:   3'- -CCAGCGc-----GCCaua-GGGCCCUGA------------GCAG- -5'
5462 3' -58.6 NC_001798.1 + 29913 0.66 0.850812
Target:  5'- uGGUCGCggGCGGUGggCUCGGGggcgggacGCUUGa- -3'
miRNA:   3'- -CCAGCG--CGCCAUa-GGGCCC--------UGAGCag -5'
5462 3' -58.6 NC_001798.1 + 102249 0.66 0.849282
Target:  5'- -cUCGCcCGGguaauacgggaaGUCCCGGuccGGCUCGUCa -3'
miRNA:   3'- ccAGCGcGCCa-----------UAGGGCC---CUGAGCAG- -5'
5462 3' -58.6 NC_001798.1 + 13079 0.66 0.843086
Target:  5'- aGGagGCGCGGg--CCCGGuGCUCc-- -3'
miRNA:   3'- -CCagCGCGCCauaGGGCCcUGAGcag -5'
5462 3' -58.6 NC_001798.1 + 39758 0.66 0.842303
Target:  5'- --cCGUGCGGU-UCCCGGGGggaagccgaccgcCUgGUCc -3'
miRNA:   3'- ccaGCGCGCCAuAGGGCCCU-------------GAgCAG- -5'
5462 3' -58.6 NC_001798.1 + 66867 0.66 0.827102
Target:  5'- aGUCGC-CGGgg-CgCCGGGGCUUGg- -3'
miRNA:   3'- cCAGCGcGCCauaG-GGCCCUGAGCag -5'
5462 3' -58.6 NC_001798.1 + 16054 0.66 0.818858
Target:  5'- --aCGCGUGGUAggucgCUgGGGGCggcgggCGUCu -3'
miRNA:   3'- ccaGCGCGCCAUa----GGgCCCUGa-----GCAG- -5'
5462 3' -58.6 NC_001798.1 + 30966 0.67 0.810455
Target:  5'- gGGUCGgGCGGggGUCgggCGGGGgUCGg- -3'
miRNA:   3'- -CCAGCgCGCCa-UAGg--GCCCUgAGCag -5'
5462 3' -58.6 NC_001798.1 + 30999 0.67 0.810455
Target:  5'- gGGUCGgGCGGggGUCgggCGGGGgUCGg- -3'
miRNA:   3'- -CCAGCgCGCCa-UAGg--GCCCUgAGCag -5'
5462 3' -58.6 NC_001798.1 + 130311 0.67 0.810455
Target:  5'- ---gGCGCGGUG--CCGGGugUCG-Cg -3'
miRNA:   3'- ccagCGCGCCAUagGGCCCugAGCaG- -5'
5462 3' -58.6 NC_001798.1 + 37692 0.67 0.810455
Target:  5'- cGUCGCGUGGUAUUuaCCGGG-UUCc-- -3'
miRNA:   3'- cCAGCGCGCCAUAG--GGCCCuGAGcag -5'
5462 3' -58.6 NC_001798.1 + 135442 0.67 0.801901
Target:  5'- cGGUCuGCgGCGGca--CCGGGGCUgCGUUc -3'
miRNA:   3'- -CCAG-CG-CGCCauagGGCCCUGA-GCAG- -5'
5462 3' -58.6 NC_001798.1 + 15264 0.67 0.801901
Target:  5'- gGGUaCGgGCGGUGcCCCGGGuucCgggCGUg -3'
miRNA:   3'- -CCA-GCgCGCCAUaGGGCCCu--Ga--GCAg -5'
5462 3' -58.6 NC_001798.1 + 61332 0.67 0.793204
Target:  5'- cGG-CGgGCuugGGUGUCCCGG-AC-CGUCa -3'
miRNA:   3'- -CCaGCgCG---CCAUAGGGCCcUGaGCAG- -5'
5462 3' -58.6 NC_001798.1 + 150632 0.67 0.775409
Target:  5'- gGGcCGCGCGGggcUGUCUcgCGGGGggCGUCc -3'
miRNA:   3'- -CCaGCGCGCC---AUAGG--GCCCUgaGCAG- -5'
5462 3' -58.6 NC_001798.1 + 111815 0.67 0.766328
Target:  5'- cGGUCGCG-GGcGUCCaGGGGCUgG-Cg -3'
miRNA:   3'- -CCAGCGCgCCaUAGGgCCCUGAgCaG- -5'
5462 3' -58.6 NC_001798.1 + 52043 0.67 0.766328
Target:  5'- gGGUgCGCGCGc--UCCUGGGGCgcgacUGUCg -3'
miRNA:   3'- -CCA-GCGCGCcauAGGGCCCUGa----GCAG- -5'
5462 3' -58.6 NC_001798.1 + 31054 0.68 0.757135
Target:  5'- gGGUCGgGCGGggGUcgggcacuaaCCgGGGGCUCccGUCu -3'
miRNA:   3'- -CCAGCgCGCCa-UA----------GGgCCCUGAG--CAG- -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.