miRNA display CGI


Results 1 - 20 of 54 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
22924 3' -55.2 NC_005137.2 + 49207 0.66 0.929221
Target:  5'- uGCGCUCGcAC-GGCuaccuGUCGGUgccgGUCGCu -3'
miRNA:   3'- cUGCGAGCaUGuUCG-----CAGCCG----CAGCG- -5'
22924 3' -55.2 NC_005137.2 + 130786 0.66 0.929221
Target:  5'- --aGCUCGcuuuUGCuGGCuuuGUCGGCG-CGCg -3'
miRNA:   3'- cugCGAGC----AUGuUCG---CAGCCGCaGCG- -5'
22924 3' -55.2 NC_005137.2 + 28228 0.66 0.928696
Target:  5'- cGCGCUgcgUGUACAgccgucuGGCGcaucccagCGcGCGUCGCg -3'
miRNA:   3'- cUGCGA---GCAUGU-------UCGCa-------GC-CGCAGCG- -5'
22924 3' -55.2 NC_005137.2 + 63453 0.66 0.928696
Target:  5'- gGGCGCgCGUugugcccGCGAGCGaCGGCGagacCGUg -3'
miRNA:   3'- -CUGCGaGCA-------UGUUCGCaGCCGCa---GCG- -5'
22924 3' -55.2 NC_005137.2 + 110978 0.66 0.923855
Target:  5'- cACGaCUCuUGCGcgucGGCGggCGGCGUCGa -3'
miRNA:   3'- cUGC-GAGcAUGU----UCGCa-GCCGCAGCg -5'
22924 3' -55.2 NC_005137.2 + 21136 0.66 0.918248
Target:  5'- -cCGUuugCGUGCAAGCG-CGGCaaaacgCGCg -3'
miRNA:   3'- cuGCGa--GCAUGUUCGCaGCCGca----GCG- -5'
22924 3' -55.2 NC_005137.2 + 1671 0.66 0.918248
Target:  5'- uGGCcgaaUUGaACAAcGCGUCGGCGcCGCg -3'
miRNA:   3'- -CUGcg--AGCaUGUU-CGCAGCCGCaGCG- -5'
22924 3' -55.2 NC_005137.2 + 96493 0.66 0.918248
Target:  5'- uGCGCgUCGUguccACGGGCGcuaugacuagCGGCG-CGCa -3'
miRNA:   3'- cUGCG-AGCA----UGUUCGCa---------GCCGCaGCG- -5'
22924 3' -55.2 NC_005137.2 + 93519 0.66 0.918248
Target:  5'- cGGCGCaaaUGCAcGCGUCGGCcgaaaacugcGUCGUg -3'
miRNA:   3'- -CUGCGagcAUGUuCGCAGCCG----------CAGCG- -5'
22924 3' -55.2 NC_005137.2 + 17312 0.66 0.918248
Target:  5'- uGACGCgcuGUGCGA-CGUgcGCGUCGCa -3'
miRNA:   3'- -CUGCGag-CAUGUUcGCAgcCGCAGCG- -5'
22924 3' -55.2 NC_005137.2 + 2007 0.66 0.917674
Target:  5'- --aGCUCGUGCAcGCuG-CGGCGcagacuauuuaggUCGCg -3'
miRNA:   3'- cugCGAGCAUGUuCG-CaGCCGC-------------AGCG- -5'
22924 3' -55.2 NC_005137.2 + 46841 0.66 0.906311
Target:  5'- uGCGCgCGUGCGAGCauacUGGCG-CGUg -3'
miRNA:   3'- cUGCGaGCAUGUUCGca--GCCGCaGCG- -5'
22924 3' -55.2 NC_005137.2 + 41831 0.66 0.905689
Target:  5'- aGGCGUuacgaagUCGU-CGAGC-UCGGCacGUCGCu -3'
miRNA:   3'- -CUGCG-------AGCAuGUUCGcAGCCG--CAGCG- -5'
22924 3' -55.2 NC_005137.2 + 45277 0.67 0.893425
Target:  5'- gGugGUuaagUUGUGCGAcGCGUCGcGCGccCGCg -3'
miRNA:   3'- -CugCG----AGCAUGUU-CGCAGC-CGCa-GCG- -5'
22924 3' -55.2 NC_005137.2 + 98360 0.67 0.872371
Target:  5'- cACGCUUGUGCGccGGU-UUGGCGccgUCGCg -3'
miRNA:   3'- cUGCGAGCAUGU--UCGcAGCCGC---AGCG- -5'
22924 3' -55.2 NC_005137.2 + 96688 0.67 0.872371
Target:  5'- gGACgGC-CGUACAcaaaaAGCGgguUCGGCGUugaCGCa -3'
miRNA:   3'- -CUG-CGaGCAUGU-----UCGC---AGCCGCA---GCG- -5'
22924 3' -55.2 NC_005137.2 + 108272 0.67 0.864911
Target:  5'- gGAUGCg-GUGCu-GCGaUCGGCG-CGCa -3'
miRNA:   3'- -CUGCGagCAUGuuCGC-AGCCGCaGCG- -5'
22924 3' -55.2 NC_005137.2 + 11195 0.67 0.864911
Target:  5'- aGCGCUUuUGCAAuGCGUUcGCgGUCGCg -3'
miRNA:   3'- cUGCGAGcAUGUU-CGCAGcCG-CAGCG- -5'
22924 3' -55.2 NC_005137.2 + 112413 0.67 0.864911
Target:  5'- cGGCGCgccaUUGUGCAAGUa-CGGCGUUGg -3'
miRNA:   3'- -CUGCG----AGCAUGUUCGcaGCCGCAGCg -5'
22924 3' -55.2 NC_005137.2 + 70156 0.68 0.857239
Target:  5'- gGugGCggugUCGgugaAGGUGUUGGCGUCGg -3'
miRNA:   3'- -CugCG----AGCaug-UUCGCAGCCGCAGCg -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.