miRNA display CGI


Results 1 - 20 of 23 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
2987 5' -56.6 NC_001493.1 + 109830 0.66 0.889374
Target:  5'- uGGCGuGuACGcGuCGA-GGAACCCUCg- -3'
miRNA:   3'- -CCGCuC-UGC-CuGCUaCCUUGGGAGga -5'
2987 5' -56.6 NC_001493.1 + 8952 0.66 0.875486
Target:  5'- cGGgGAGAaaccuGGCGGgugUGGGACCUUCCc -3'
miRNA:   3'- -CCgCUCUgc---CUGCU---ACCUUGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 60324 0.66 0.875486
Target:  5'- -uCGAGACGG--GAUGGAcugACCuCUCCg -3'
miRNA:   3'- ccGCUCUGCCugCUACCU---UGG-GAGGa -5'
2987 5' -56.6 NC_001493.1 + 124506 0.66 0.875486
Target:  5'- cGGgGAGAaaccuGGCGGgugUGGGACCUUCCc -3'
miRNA:   3'- -CCgCUCUgc---CUGCU---ACCUUGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 3349 0.67 0.853061
Target:  5'- gGGUGGuGAUcGACGAUGuacACCCUCCg -3'
miRNA:   3'- -CCGCU-CUGcCUGCUACcu-UGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 118903 0.67 0.853061
Target:  5'- gGGUGGuGAUcGACGAUGuacACCCUCCg -3'
miRNA:   3'- -CCGCU-CUGcCUGCUACcu-UGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 124058 0.67 0.828865
Target:  5'- gGGCGAGACGcGCGGc----CCCUCCa -3'
miRNA:   3'- -CCGCUCUGCcUGCUaccuuGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 8503 0.67 0.828865
Target:  5'- gGGCGAGACGcGCGGc----CCCUCCa -3'
miRNA:   3'- -CCGCUCUGCcUGCUaccuuGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 118570 0.67 0.820438
Target:  5'- -aCGGGAUGGugGAUGGGACgg-CCg -3'
miRNA:   3'- ccGCUCUGCCugCUACCUUGggaGGa -5'
2987 5' -56.6 NC_001493.1 + 3015 0.67 0.820438
Target:  5'- -aCGGGAUGGugGAUGGGACgg-CCg -3'
miRNA:   3'- ccGCUCUGCCugCUACCUUGggaGGa -5'
2987 5' -56.6 NC_001493.1 + 50370 0.68 0.766621
Target:  5'- aGGCGGGGaguccgGGAUGAUaccGGGACCCagCCa -3'
miRNA:   3'- -CCGCUCUg-----CCUGCUA---CCUUGGGa-GGa -5'
2987 5' -56.6 NC_001493.1 + 71585 0.69 0.728274
Target:  5'- gGGCGAGACucgaggcacuGGGgGAaaUGGAACUCUCg- -3'
miRNA:   3'- -CCGCUCUG----------CCUgCU--ACCUUGGGAGga -5'
2987 5' -56.6 NC_001493.1 + 113966 0.71 0.638068
Target:  5'- aGGCGuucGCGGACGAU---ACCCUCCc -3'
miRNA:   3'- -CCGCuc-UGCCUGCUAccuUGGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 95604 0.71 0.607618
Target:  5'- gGGCGAgaGACGGGUGGUGGA--CCUCCc -3'
miRNA:   3'- -CCGCU--CUGCCUGCUACCUugGGAGGa -5'
2987 5' -56.6 NC_001493.1 + 3785 0.72 0.541449
Target:  5'- gGGCGAGGCGcGGCGGUuucgaggugaugugcGGGuccAUCCUCCUc -3'
miRNA:   3'- -CCGCUCUGC-CUGCUA---------------CCU---UGGGAGGA- -5'
2987 5' -56.6 NC_001493.1 + 119339 0.72 0.541449
Target:  5'- gGGCGAGGCGcGGCGGUuucgaggugaugugcGGGuccAUCCUCCUc -3'
miRNA:   3'- -CCGCUCUGC-CUGCUA---------------CCU---UGGGAGGA- -5'
2987 5' -56.6 NC_001493.1 + 9267 0.73 0.516975
Target:  5'- cGGgGAGGCGGGCG-UGGGGCUggacuaccugcguCUCCUc -3'
miRNA:   3'- -CCgCUCUGCCUGCuACCUUGG-------------GAGGA- -5'
2987 5' -56.6 NC_001493.1 + 124821 0.73 0.516975
Target:  5'- cGGgGAGGCGGGCG-UGGGGCUggacuaccugcguCUCCUc -3'
miRNA:   3'- -CCgCUCUGCCUGCuACCUUGG-------------GAGGA- -5'
2987 5' -56.6 NC_001493.1 + 61092 0.73 0.489159
Target:  5'- gGGCGGGugGGACGAcuuuUGGAAaagaUUCCa -3'
miRNA:   3'- -CCGCUCugCCUGCU----ACCUUgg--GAGGa -5'
2987 5' -56.6 NC_001493.1 + 23099 0.74 0.451995
Target:  5'- gGGCGAGAuCGGuCGAUacGuGACCCUCCa -3'
miRNA:   3'- -CCGCUCU-GCCuGCUA--CcUUGGGAGGa -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.