miRNA display CGI


Results 1 - 20 of 25 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
28386 5' -57.8 NC_005946.1 + 96456 0.66 0.78894
Target:  5'- cCCuUCUUCUUUCUCCuCUuggGUCCCGGu -3'
miRNA:   3'- -GGuAGAGGGAGGAGGuGGa--CAGGGUC- -5'
28386 5' -57.8 NC_005946.1 + 10671 0.66 0.786176
Target:  5'- uCCAggaggUCCCUCCUgacgaacgagcaccCCACCagGUCCCu- -3'
miRNA:   3'- -GGUag---AGGGAGGA--------------GGUGGa-CAGGGuc -5'
28386 5' -57.8 NC_005946.1 + 24055 0.66 0.751133
Target:  5'- uCCAgCUCCCuuUCC-CCACCguccgacGUCCCuGg -3'
miRNA:   3'- -GGUaGAGGG--AGGaGGUGGa------CAGGGuC- -5'
28386 5' -57.8 NC_005946.1 + 80320 0.66 0.751133
Target:  5'- gCAUCccUCCCUCUUCCGC--GUgCCAGu -3'
miRNA:   3'- gGUAG--AGGGAGGAGGUGgaCAgGGUC- -5'
28386 5' -57.8 NC_005946.1 + 49289 0.67 0.725613
Target:  5'- cCCGUCUCCaccgacCUCCUgUagcccgacgggacgaACCUGgagCCCAGg -3'
miRNA:   3'- -GGUAGAGG------GAGGAgG---------------UGGACa--GGGUC- -5'
28386 5' -57.8 NC_005946.1 + 27593 0.67 0.711632
Target:  5'- -aGUCUagCCUCCUCagcuCCgaGUCCCAGg -3'
miRNA:   3'- ggUAGAg-GGAGGAGgu--GGa-CAGGGUC- -5'
28386 5' -57.8 NC_005946.1 + 94093 0.67 0.711632
Target:  5'- cCCAgCUCCCgccggCCUCCugUU-UCCCAa -3'
miRNA:   3'- -GGUaGAGGGa----GGAGGugGAcAGGGUc -5'
28386 5' -57.8 NC_005946.1 + 27834 0.67 0.711632
Target:  5'- uCCA-CgggggCCCUCCUCgacaGCUUGUCCuCGGg -3'
miRNA:   3'- -GGUaGa----GGGAGGAGg---UGGACAGG-GUC- -5'
28386 5' -57.8 NC_005946.1 + 36615 0.67 0.701563
Target:  5'- gCCGUCUCCCaugCCgaguggaccgCCACCggGUCCgAa -3'
miRNA:   3'- -GGUAGAGGGa--GGa---------GGUGGa-CAGGgUc -5'
28386 5' -57.8 NC_005946.1 + 28330 0.67 0.691434
Target:  5'- cCCAcCUCacuCCUCCUCCcaGCCUGgccaUCUCGGg -3'
miRNA:   3'- -GGUaGAG---GGAGGAGG--UGGAC----AGGGUC- -5'
28386 5' -57.8 NC_005946.1 + 41557 0.68 0.650508
Target:  5'- cCCGccUCUCCCUCCUCacccaugggACC-GUCCCc- -3'
miRNA:   3'- -GGU--AGAGGGAGGAGg--------UGGaCAGGGuc -5'
28386 5' -57.8 NC_005946.1 + 96333 0.69 0.619627
Target:  5'- gCCAuucucUCUUCCUCCUCagacauCCUGUCCa-- -3'
miRNA:   3'- -GGU-----AGAGGGAGGAGgu----GGACAGGguc -5'
28386 5' -57.8 NC_005946.1 + 67695 0.69 0.619627
Target:  5'- aCGUCgggCCC-CCUCUcgACCUGuUCCCAc -3'
miRNA:   3'- gGUAGa--GGGaGGAGG--UGGAC-AGGGUc -5'
28386 5' -57.8 NC_005946.1 + 80394 0.69 0.615511
Target:  5'- gCCGUCUCCCgcaaagaggaCCAgCCUGUCCCu- -3'
miRNA:   3'- -GGUAGAGGGagga------GGU-GGACAGGGuc -5'
28386 5' -57.8 NC_005946.1 + 30506 0.69 0.609341
Target:  5'- gCGUCcacgggauugUCCCUUCUCCACCUGcggUUCAGc -3'
miRNA:   3'- gGUAG----------AGGGAGGAGGUGGACa--GGGUC- -5'
28386 5' -57.8 NC_005946.1 + 31849 0.69 0.58883
Target:  5'- gCAUCUCUagCUUCUCCAUCagGUCCCu- -3'
miRNA:   3'- gGUAGAGG--GAGGAGGUGGa-CAGGGuc -5'
28386 5' -57.8 NC_005946.1 + 13422 0.69 0.568446
Target:  5'- --uUCgCCCUCCU-CACCgcGUCCCAGa -3'
miRNA:   3'- gguAGaGGGAGGAgGUGGa-CAGGGUC- -5'
28386 5' -57.8 NC_005946.1 + 68849 0.71 0.479635
Target:  5'- uCCcUCUCCCUCCUCagcucCCUGgCCuCAGa -3'
miRNA:   3'- -GGuAGAGGGAGGAGgu---GGACaGG-GUC- -5'
28386 5' -57.8 NC_005946.1 + 9358 0.71 0.470167
Target:  5'- uCUAUCcugcaCCCUCCUCCACa-GUCCaCAGu -3'
miRNA:   3'- -GGUAGa----GGGAGGAGGUGgaCAGG-GUC- -5'
28386 5' -57.8 NC_005946.1 + 21338 0.71 0.470167
Target:  5'- gUCGUCaCCC-CCUCCugCUGUgUCCAGg -3'
miRNA:   3'- -GGUAGaGGGaGGAGGugGACA-GGGUC- -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.