miRNA display CGI


Results 1 - 20 of 40 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
27088 3' -55.5 NC_005832.1 + 7534 0.66 0.867038
Target:  5'- gCUcgUUCgUCaggaGGGACCUCCugGACCUGc -3'
miRNA:   3'- -GGuaGAGgAGg---UCCUGGAGG--UUGGAU- -5'
27088 3' -55.5 NC_005832.1 + 39866 0.66 0.867038
Target:  5'- aCCGUCUggaCCcCUGGGACCUgCCgGACCUc -3'
miRNA:   3'- -GGUAGA---GGaGGUCCUGGA-GG-UUGGAu -5'
27088 3' -55.5 NC_005832.1 + 36318 0.66 0.867038
Target:  5'- gCGUCUUUaUCCAGGGCCgacUCUGACCc- -3'
miRNA:   3'- gGUAGAGG-AGGUCCUGG---AGGUUGGau -5'
27088 3' -55.5 NC_005832.1 + 39997 0.66 0.859232
Target:  5'- gUCGUCUcCCUuuGGGcCCUCUGGCCc- -3'
miRNA:   3'- -GGUAGA-GGAggUCCuGGAGGUUGGau -5'
27088 3' -55.5 NC_005832.1 + 32968 0.66 0.851207
Target:  5'- --uUCUCCUgCCuucGGcagacACCUCCAGCCUc -3'
miRNA:   3'- gguAGAGGA-GGu--CC-----UGGAGGUUGGAu -5'
27088 3' -55.5 NC_005832.1 + 30107 0.66 0.834534
Target:  5'- cUCAUgUCCcugUCgAGGGCUUCCAGCUUc -3'
miRNA:   3'- -GGUAgAGG---AGgUCCUGGAGGUUGGAu -5'
27088 3' -55.5 NC_005832.1 + 101219 0.66 0.834534
Target:  5'- aCCAUCgcucacUCCUCCAGGACaUUCUcAUCg- -3'
miRNA:   3'- -GGUAG------AGGAGGUCCUG-GAGGuUGGau -5'
27088 3' -55.5 NC_005832.1 + 6592 0.67 0.829376
Target:  5'- gCCGUCaUgUCCAGGGCCcagUCCAagggggacauguuuaACCUGa -3'
miRNA:   3'- -GGUAGaGgAGGUCCUGG---AGGU---------------UGGAU- -5'
27088 3' -55.5 NC_005832.1 + 79333 0.67 0.8259
Target:  5'- gCCAUCacCCUcCCGGcGGCCUCCAugagcuCCUc -3'
miRNA:   3'- -GGUAGa-GGA-GGUC-CUGGAGGUu-----GGAu -5'
27088 3' -55.5 NC_005832.1 + 41452 0.67 0.8259
Target:  5'- ---cCUCCUCCucGGCCU-CAGCCUGg -3'
miRNA:   3'- gguaGAGGAGGucCUGGAgGUUGGAU- -5'
27088 3' -55.5 NC_005832.1 + 42744 0.67 0.8259
Target:  5'- aCCAUCcaCC-CCAGGugCUCCGcagcgucuccGCCg- -3'
miRNA:   3'- -GGUAGa-GGaGGUCCugGAGGU----------UGGau -5'
27088 3' -55.5 NC_005832.1 + 66746 0.67 0.808078
Target:  5'- ---cCUCgUCCAGGcccucgaguCCUCCAGCCa- -3'
miRNA:   3'- gguaGAGgAGGUCCu--------GGAGGUUGGau -5'
27088 3' -55.5 NC_005832.1 + 79045 0.67 0.789578
Target:  5'- cCCAUCUCCaCCAGGggucuACCUCUuagguCCa- -3'
miRNA:   3'- -GGUAGAGGaGGUCC-----UGGAGGuu---GGau -5'
27088 3' -55.5 NC_005832.1 + 11373 0.67 0.789578
Target:  5'- gCCGUCUCgUCCuacuaccaguucAGGACCUacgaGACCUu -3'
miRNA:   3'- -GGUAGAGgAGG------------UCCUGGAgg--UUGGAu -5'
27088 3' -55.5 NC_005832.1 + 104082 0.67 0.789578
Target:  5'- aCCAUCUCCUCgGGaGCUUCgCAGUCUGa -3'
miRNA:   3'- -GGUAGAGGAGgUCcUGGAG-GUUGGAU- -5'
27088 3' -55.5 NC_005832.1 + 42458 0.67 0.780098
Target:  5'- cUCGUCUCCcgaaaAGGACC-CCAGCCc- -3'
miRNA:   3'- -GGUAGAGGagg--UCCUGGaGGUUGGau -5'
27088 3' -55.5 NC_005832.1 + 8423 0.67 0.780098
Target:  5'- gCCGUCcgCCUCCGGcACCUUC-ACCa- -3'
miRNA:   3'- -GGUAGa-GGAGGUCcUGGAGGuUGGau -5'
27088 3' -55.5 NC_005832.1 + 6082 0.68 0.770476
Target:  5'- gCCAUCcccugcCCUCCcgAGGAgCUCgCGGCCUGc -3'
miRNA:   3'- -GGUAGa-----GGAGG--UCCUgGAG-GUUGGAU- -5'
27088 3' -55.5 NC_005832.1 + 66364 0.68 0.760724
Target:  5'- -uGUCauagCCUCCAGGGCagcaCUCgAGCCUGa -3'
miRNA:   3'- ggUAGa---GGAGGUCCUG----GAGgUUGGAU- -5'
27088 3' -55.5 NC_005832.1 + 80981 0.68 0.760724
Target:  5'- aCCGUCaUCCcgUCCAGGGCC-CCGggggacACCg- -3'
miRNA:   3'- -GGUAG-AGG--AGGUCCUGGaGGU------UGGau -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.