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
27472 3' -53.3 NC_005869.1 + 3356 0.66 0.724123
Target:  5'- aGGCAUgCAGCcCcACGGGGAagCUugUg -3'
miRNA:   3'- -CCGUAgGUCGaGuUGCUCCUg-GAugG- -5'
27472 3' -53.3 NC_005869.1 + 15412 0.66 0.723013
Target:  5'- cGCGUCUccuccguGGCcgUCAcCGGGGACCcggugGCCg -3'
miRNA:   3'- cCGUAGG-------UCG--AGUuGCUCCUGGa----UGG- -5'
27472 3' -53.3 NC_005869.1 + 18791 0.66 0.701741
Target:  5'- cGGCGUCCGGCcgCGGCuccGGCCgcgGCUc -3'
miRNA:   3'- -CCGUAGGUCGa-GUUGcucCUGGa--UGG- -5'
27472 3' -53.3 NC_005869.1 + 16649 0.66 0.701741
Target:  5'- uGGCGcCgCAGCUCAGCGcGG-CCgcgGCg -3'
miRNA:   3'- -CCGUaG-GUCGAGUUGCuCCuGGa--UGg -5'
27472 3' -53.3 NC_005869.1 + 6661 0.66 0.701741
Target:  5'- aGGCgGUCCuGC-CAGCGGcGGGCg-GCCa -3'
miRNA:   3'- -CCG-UAGGuCGaGUUGCU-CCUGgaUGG- -5'
27472 3' -53.3 NC_005869.1 + 17858 0.66 0.700614
Target:  5'- cGGCGguaccgCCgggGGC-CGAUGAGGGguggcauCCUGCCg -3'
miRNA:   3'- -CCGUa-----GG---UCGaGUUGCUCCU-------GGAUGG- -5'
27472 3' -53.3 NC_005869.1 + 27992 0.66 0.690433
Target:  5'- cGCGgacUCCGGU--GACGAGG-CCUGCg -3'
miRNA:   3'- cCGU---AGGUCGagUUGCUCCuGGAUGg -5'
27472 3' -53.3 NC_005869.1 + 16923 0.66 0.690433
Target:  5'- cGGUggCCGGUcgGGCGGGGggcGCCUGCa -3'
miRNA:   3'- -CCGuaGGUCGagUUGCUCC---UGGAUGg -5'
27472 3' -53.3 NC_005869.1 + 17828 0.66 0.683618
Target:  5'- uGGUgGUCCGGCcgcgggacgcgggggUCGGCGAGGggcggGCCcGCCg -3'
miRNA:   3'- -CCG-UAGGUCG---------------AGUUGCUCC-----UGGaUGG- -5'
27472 3' -53.3 NC_005869.1 + 22411 0.66 0.679064
Target:  5'- cGC-UCgCAG-UCAGCGGGGA-CUGCCa -3'
miRNA:   3'- cCGuAG-GUCgAGUUGCUCCUgGAUGG- -5'
27472 3' -53.3 NC_005869.1 + 21894 0.66 0.667646
Target:  5'- aGGCAUUCAGCgCGGCcAGG--CUGCCc -3'
miRNA:   3'- -CCGUAGGUCGaGUUGcUCCugGAUGG- -5'
27472 3' -53.3 NC_005869.1 + 28095 0.67 0.660777
Target:  5'- uGGCGaCCAauccacuuccuggacGCggaCGACGAGGACCU-CUg -3'
miRNA:   3'- -CCGUaGGU---------------CGa--GUUGCUCCUGGAuGG- -5'
27472 3' -53.3 NC_005869.1 + 29125 0.67 0.656192
Target:  5'- gGGCAagCAGCUCGucguugccacCGAGGGCUcgggGCUa -3'
miRNA:   3'- -CCGUagGUCGAGUu---------GCUCCUGGa---UGG- -5'
27472 3' -53.3 NC_005869.1 + 28565 0.67 0.633222
Target:  5'- cGGCA---AGCUCcGCGccaAGGGCCaUGCCa -3'
miRNA:   3'- -CCGUaggUCGAGuUGC---UCCUGG-AUGG- -5'
27472 3' -53.3 NC_005869.1 + 25349 0.67 0.633222
Target:  5'- gGGgGUCUGGCagCAGugccuCGAGGACCgaaACCu -3'
miRNA:   3'- -CCgUAGGUCGa-GUU-----GCUCCUGGa--UGG- -5'
27472 3' -53.3 NC_005869.1 + 6230 0.67 0.633222
Target:  5'- gGGCGUCCaucuGGCU-GGCGAaGACC-ACCu -3'
miRNA:   3'- -CCGUAGG----UCGAgUUGCUcCUGGaUGG- -5'
27472 3' -53.3 NC_005869.1 + 25213 0.67 0.62173
Target:  5'- cGCG-CCGGC-C-ACGGGGACCUGg- -3'
miRNA:   3'- cCGUaGGUCGaGuUGCUCCUGGAUgg -5'
27472 3' -53.3 NC_005869.1 + 22579 0.67 0.620581
Target:  5'- -uCAUUgAGCUCGcgccgccGCGAGGugCUgACCa -3'
miRNA:   3'- ccGUAGgUCGAGU-------UGCUCCugGA-UGG- -5'
27472 3' -53.3 NC_005869.1 + 10748 0.68 0.598786
Target:  5'- cGGCAcccacgggUgCAGCUCaAGCGAGaGGCCauggagGCCu -3'
miRNA:   3'- -CCGU--------AgGUCGAG-UUGCUC-CUGGa-----UGG- -5'
27472 3' -53.3 NC_005869.1 + 24918 0.68 0.587356
Target:  5'- gGGuCAUgCAGCgccuCGAGGACCUGg- -3'
miRNA:   3'- -CC-GUAgGUCGaguuGCUCCUGGAUgg -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.