miRNA display CGI


Results 1 - 20 of 28 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
2962 3' -53.6 NC_001493.1 + 31288 0.66 0.962876
Target:  5'- -aCCUggagauucUCCAGUCggauggcGCCGGGgacCCGUCCGu -3'
miRNA:   3'- cgGGA--------AGGUUAG-------UGGCUCa--GGUAGGC- -5'
2962 3' -53.6 NC_001493.1 + 17955 0.66 0.955896
Target:  5'- cGCUCUUCCuuUCucaCGGGUCC--CCGa -3'
miRNA:   3'- -CGGGAAGGuuAGug-GCUCAGGuaGGC- -5'
2962 3' -53.6 NC_001493.1 + 28204 0.66 0.953518
Target:  5'- cGCCCggUCCGGUCgauccacccgcaaccACCGAGgagCCgAUCgCGg -3'
miRNA:   3'- -CGGGa-AGGUUAG---------------UGGCUCa--GG-UAG-GC- -5'
2962 3' -53.6 NC_001493.1 + 84240 0.66 0.948073
Target:  5'- aGCCCgguggcguucgaucgUCC-AUCGCUGGGUCCAcaguauauuUUCGg -3'
miRNA:   3'- -CGGGa--------------AGGuUAGUGGCUCAGGU---------AGGC- -5'
2962 3' -53.6 NC_001493.1 + 53377 0.66 0.947638
Target:  5'- --aCUUCCGAaucCACgGAGUCCAUCa- -3'
miRNA:   3'- cggGAAGGUUa--GUGgCUCAGGUAGgc -5'
2962 3' -53.6 NC_001493.1 + 80001 0.67 0.938417
Target:  5'- cCCCUUucCCGGgcacgacccUCACCGAGUUCAUgUGg -3'
miRNA:   3'- cGGGAA--GGUU---------AGUGGCUCAGGUAgGC- -5'
2962 3' -53.6 NC_001493.1 + 62280 0.67 0.935461
Target:  5'- cGCCCgagCCAccacaAUCacgaccacgugauugACCGGGUCgGUCCa -3'
miRNA:   3'- -CGGGaa-GGU-----UAG---------------UGGCUCAGgUAGGc -5'
2962 3' -53.6 NC_001493.1 + 61345 0.67 0.933441
Target:  5'- gGCCCggagUCCcg-CgACCcAGUCCAUCCc -3'
miRNA:   3'- -CGGGa---AGGuuaG-UGGcUCAGGUAGGc -5'
2962 3' -53.6 NC_001493.1 + 32745 0.67 0.93344
Target:  5'- cGCCCgucCCGGUCgcgACCG-GUCCGgcCCGa -3'
miRNA:   3'- -CGGGaa-GGUUAG---UGGCuCAGGUa-GGC- -5'
2962 3' -53.6 NC_001493.1 + 68275 0.67 0.922746
Target:  5'- gGCCCagcgUgCAGUUACCcAGUCCGUCg- -3'
miRNA:   3'- -CGGGa---AgGUUAGUGGcUCAGGUAGgc -5'
2962 3' -53.6 NC_001493.1 + 18277 0.68 0.917029
Target:  5'- gGCUCUUCCcaGAaCGgCGGGUUCAUCCc -3'
miRNA:   3'- -CGGGAAGG--UUaGUgGCUCAGGUAGGc -5'
2962 3' -53.6 NC_001493.1 + 133831 0.68 0.917029
Target:  5'- gGCUCUUCCcaGAaCGgCGGGUUCAUCCc -3'
miRNA:   3'- -CGGGAAGG--UUaGUgGCUCAGGUAGGc -5'
2962 3' -53.6 NC_001493.1 + 110786 0.68 0.904858
Target:  5'- gGCCCUUCCAGUCgu-GAGaCaCGUCCu -3'
miRNA:   3'- -CGGGAAGGUUAGuggCUCaG-GUAGGc -5'
2962 3' -53.6 NC_001493.1 + 44179 0.68 0.904858
Target:  5'- gGCCCUgggggagCCGAUCAgCCGcAGUCag-CCGc -3'
miRNA:   3'- -CGGGAa------GGUUAGU-GGC-UCAGguaGGC- -5'
2962 3' -53.6 NC_001493.1 + 42037 0.68 0.898408
Target:  5'- uGCCCgagUgCGAUCACCccGUUCAUUCGu -3'
miRNA:   3'- -CGGGa--AgGUUAGUGGcuCAGGUAGGC- -5'
2962 3' -53.6 NC_001493.1 + 49820 0.68 0.898408
Target:  5'- cGCCaaUCCAGUUcCCGA--CCGUCCGg -3'
miRNA:   3'- -CGGgaAGGUUAGuGGCUcaGGUAGGC- -5'
2962 3' -53.6 NC_001493.1 + 28556 0.7 0.830168
Target:  5'- cGCCCgaguUCCg--CcUCGAGUCCAUCCc -3'
miRNA:   3'- -CGGGa---AGGuuaGuGGCUCAGGUAGGc -5'
2962 3' -53.6 NC_001493.1 + 16176 0.7 0.812777
Target:  5'- -aCCUUCCccgcacUCACCGAgaccuuccuGUCCAUCCu -3'
miRNA:   3'- cgGGAAGGuu----AGUGGCU---------CAGGUAGGc -5'
2962 3' -53.6 NC_001493.1 + 120703 0.7 0.803823
Target:  5'- aGCCCc-CCGGUCACCGGGgCCGagCGu -3'
miRNA:   3'- -CGGGaaGGUUAGUGGCUCaGGUagGC- -5'
2962 3' -53.6 NC_001493.1 + 5148 0.7 0.803823
Target:  5'- aGCCCc-CCGGUCACCGGGgCCGagCGu -3'
miRNA:   3'- -CGGGaaGGUUAGUGGCUCaGGUagGC- -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.