miRNA display CGI


Results 1 - 16 of 16 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
2721 3' -53.1 NC_001491.2 + 19949 0.66 0.980358
Target:  5'- aGGAUCAaCGGGU-UGGGgGCuCGCGUc -3'
miRNA:   3'- -CCUAGUgGUCCAcACCCaUGuGUGCG- -5'
2721 3' -53.1 NC_001491.2 + 134985 0.66 0.978095
Target:  5'- cGGUUA-CGGGUGgcgGGGUcuuaACGCGCa -3'
miRNA:   3'- cCUAGUgGUCCACa--CCCAug--UGUGCG- -5'
2721 3' -53.1 NC_001491.2 + 135252 0.66 0.978095
Target:  5'- gGGAUgugaagCugCAGGUGUguuguuccGGGUGCagGCAgGCc -3'
miRNA:   3'- -CCUA------GugGUCCACA--------CCCAUG--UGUgCG- -5'
2721 3' -53.1 NC_001491.2 + 80385 0.66 0.973003
Target:  5'- ---gCACUAGGUggcGUGGGUuCACggaugGCGCg -3'
miRNA:   3'- ccuaGUGGUCCA---CACCCAuGUG-----UGCG- -5'
2721 3' -53.1 NC_001491.2 + 34558 0.66 0.969264
Target:  5'- -aGUCACUAGGgcuuccacgacuugUGUGGGUGuugUGCugGCc -3'
miRNA:   3'- ccUAGUGGUCC--------------ACACCCAU---GUGugCG- -5'
2721 3' -53.1 NC_001491.2 + 42371 0.67 0.967105
Target:  5'- aGGAUCGCUGGGcaucgcUGGG--CGCAUGCu -3'
miRNA:   3'- -CCUAGUGGUCCac----ACCCauGUGUGCG- -5'
2721 3' -53.1 NC_001491.2 + 126547 0.67 0.952692
Target:  5'- gGGAUcCACCgaGGGUGUGGGaggugguaGCGgAgGCg -3'
miRNA:   3'- -CCUA-GUGG--UCCACACCCa-------UGUgUgCG- -5'
2721 3' -53.1 NC_001491.2 + 86929 0.68 0.943644
Target:  5'- cGGcgCACUuggcGGUGUGGGUGaGCuugggcgggggagGCGCa -3'
miRNA:   3'- -CCuaGUGGu---CCACACCCAUgUG-------------UGCG- -5'
2721 3' -53.1 NC_001491.2 + 34511 0.68 0.939443
Target:  5'- uGGUCucCCAGGUGUuacuGGcGUGCucggcCACGCg -3'
miRNA:   3'- cCUAGu-GGUCCACA----CC-CAUGu----GUGCG- -5'
2721 3' -53.1 NC_001491.2 + 22177 0.68 0.939443
Target:  5'- cGAaCGCCucaAGcGUGUGGGUAgACGgGCu -3'
miRNA:   3'- cCUaGUGG---UC-CACACCCAUgUGUgCG- -5'
2721 3' -53.1 NC_001491.2 + 148460 0.68 0.934545
Target:  5'- cGGA--GCCAGGggaacGcGGGUGCGCuCGCc -3'
miRNA:   3'- -CCUagUGGUCCa----CaCCCAUGUGuGCG- -5'
2721 3' -53.1 NC_001491.2 + 57107 0.68 0.929403
Target:  5'- cGAUgaaGCguGGUGUGGG--CGCAUGCa -3'
miRNA:   3'- cCUAg--UGguCCACACCCauGUGUGCG- -5'
2721 3' -53.1 NC_001491.2 + 94127 0.69 0.90577
Target:  5'- aGAgugCACCGcGGUGgccGGGUGCACccggccaacgaccACGCu -3'
miRNA:   3'- cCUa--GUGGU-CCACa--CCCAUGUG-------------UGCG- -5'
2721 3' -53.1 NC_001491.2 + 27709 0.69 0.900039
Target:  5'- cGGcUC-CUGGGUGaUGGGUAgGCGuCGCa -3'
miRNA:   3'- -CCuAGuGGUCCAC-ACCCAUgUGU-GCG- -5'
2721 3' -53.1 NC_001491.2 + 144494 0.69 0.900039
Target:  5'- cGGGUgGCC-GGUGgcgGGGUuccgcgGCGgGCGCu -3'
miRNA:   3'- -CCUAgUGGuCCACa--CCCA------UGUgUGCG- -5'
2721 3' -53.1 NC_001491.2 + 142181 1.16 0.002273
Target:  5'- cGGAUCACCAGGUGUGGGUACACACGCa -3'
miRNA:   3'- -CCUAGUGGUCCACACCCAUGUGUGCG- -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.