miRNA display CGI


Results 1 - 20 of 22 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
2641 3' -53.7 NC_001491.2 + 93523 0.66 0.962602
Target:  5'- aCAGAGUugGC--GCUaaACACCAugGCUCc -3'
miRNA:   3'- -GUCUCAugCGggCGA--UGUGGU--UGAGu -5'
2641 3' -53.7 NC_001491.2 + 110732 0.66 0.958619
Target:  5'- -cGAGUugGCCagcgucucuacuuCGCguuuucuaACGCCAACUCu -3'
miRNA:   3'- guCUCAugCGG-------------GCGa-------UGUGGUUGAGu -5'
2641 3' -53.7 NC_001491.2 + 70530 0.66 0.951073
Target:  5'- gCAGAacGUGCGUUCGCUACcgugaaucACCGcCUCGa -3'
miRNA:   3'- -GUCU--CAUGCGGGCGAUG--------UGGUuGAGU- -5'
2641 3' -53.7 NC_001491.2 + 80030 0.66 0.951073
Target:  5'- aAGAGa--GUCCGCcagUACGCCAuagGCUCAg -3'
miRNA:   3'- gUCUCaugCGGGCG---AUGUGGU---UGAGU- -5'
2641 3' -53.7 NC_001491.2 + 54360 0.66 0.946754
Target:  5'- gCAGAGgGCGUCCGUaaccUGCGagAACUCAg -3'
miRNA:   3'- -GUCUCaUGCGGGCG----AUGUggUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 33983 0.67 0.942191
Target:  5'- gGGAGgcCGugucCCUGCUGgcccCACCGACUCGg -3'
miRNA:   3'- gUCUCauGC----GGGCGAU----GUGGUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 117996 0.67 0.937382
Target:  5'- aAGAGggUGCCCGC-ACcaaCAACUCGg -3'
miRNA:   3'- gUCUCauGCGGGCGaUGug-GUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 126969 0.67 0.932324
Target:  5'- -cGGGcGCGCgCCGCcugGCGgCAACUCAc -3'
miRNA:   3'- guCUCaUGCG-GGCGa--UGUgGUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 49291 0.67 0.932324
Target:  5'- gGGAGUACccaGCCCGgUGCG--AGCUCAg -3'
miRNA:   3'- gUCUCAUG---CGGGCgAUGUggUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 97937 0.67 0.92146
Target:  5'- -uGGGUgggGCGCCCGCUACcgAgCGGCUUu -3'
miRNA:   3'- guCUCA---UGCGGGCGAUG--UgGUUGAGu -5'
2641 3' -53.7 NC_001491.2 + 147771 0.68 0.909599
Target:  5'- aGGAGUACaCCCGCauaaguucCGCCAcCUCAa -3'
miRNA:   3'- gUCUCAUGcGGGCGau------GUGGUuGAGU- -5'
2641 3' -53.7 NC_001491.2 + 24675 0.68 0.909599
Target:  5'- -cGAGgcgGCGCUCGCgcgcucccGCGCCcGCUCGg -3'
miRNA:   3'- guCUCa--UGCGGGCGa-------UGUGGuUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 89801 0.7 0.836124
Target:  5'- cUAGGGUGCGUCCGaaUAguCCAAUUCAa -3'
miRNA:   3'- -GUCUCAUGCGGGCg-AUguGGUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 132181 0.7 0.818892
Target:  5'- gCAGGGcggcUACGCCC---ACACCAGCUCu -3'
miRNA:   3'- -GUCUC----AUGCGGGcgaUGUGGUUGAGu -5'
2641 3' -53.7 NC_001491.2 + 39225 0.7 0.818892
Target:  5'- aAGAGgcgGCGCCCGCauccccACAUacaAGCUCAa -3'
miRNA:   3'- gUCUCa--UGCGGGCGa-----UGUGg--UUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 133022 0.7 0.810005
Target:  5'- gCGGAGUGgGCCCGC---GCCAGCa-- -3'
miRNA:   3'- -GUCUCAUgCGGGCGaugUGGUUGagu -5'
2641 3' -53.7 NC_001491.2 + 142107 0.71 0.782371
Target:  5'- gAGGGUggaaaaACG-CCGCUGCAgCGACUCGa -3'
miRNA:   3'- gUCUCA------UGCgGGCGAUGUgGUUGAGU- -5'
2641 3' -53.7 NC_001491.2 + 34227 0.71 0.771907
Target:  5'- cCAGAcaaACGCCCGCUcccgggggcagcaGCACCAGCcgCAg -3'
miRNA:   3'- -GUCUca-UGCGGGCGA-------------UGUGGUUGa-GU- -5'
2641 3' -53.7 NC_001491.2 + 92754 0.73 0.640906
Target:  5'- cCAGAGUGCGCauaaacuguuCUGCUGCACC--CUCGa -3'
miRNA:   3'- -GUCUCAUGCG----------GGCGAUGUGGuuGAGU- -5'
2641 3' -53.7 NC_001491.2 + 27124 0.74 0.619988
Target:  5'- cCGGAGcGCGUCCGCUGCcuccGCCGACa-- -3'
miRNA:   3'- -GUCUCaUGCGGGCGAUG----UGGUUGagu -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.