miRNA display CGI


Results 1 - 20 of 37 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
16228 5' -57.6 NC_004065.1 + 4161 0.66 0.941737
Target:  5'- -aGUCCGGaccuCCGCCcguGGUUCGAgaUCGa -3'
miRNA:   3'- cgCAGGCCau--GGUGG---CCGAGCU--AGCa -5'
16228 5' -57.6 NC_004065.1 + 8518 0.67 0.893683
Target:  5'- cUGUCgGGUgGCUuucgACCGGCUCGAaCGg -3'
miRNA:   3'- cGCAGgCCA-UGG----UGGCCGAGCUaGCa -5'
16228 5' -57.6 NC_004065.1 + 11975 0.68 0.844791
Target:  5'- -gGUCCGGUGauGCUGGUggccgCGAUCGUc -3'
miRNA:   3'- cgCAGGCCAUggUGGCCGa----GCUAGCA- -5'
16228 5' -57.6 NC_004065.1 + 28358 0.66 0.93256
Target:  5'- cGCG-CUGGUACaCGCuCGGaCUCG-UCGg -3'
miRNA:   3'- -CGCaGGCCAUG-GUG-GCC-GAGCuAGCa -5'
16228 5' -57.6 NC_004065.1 + 30462 0.66 0.941737
Target:  5'- gGCGUCUGG-ACCG-CGGCaCGAUgGg -3'
miRNA:   3'- -CGCAGGCCaUGGUgGCCGaGCUAgCa -5'
16228 5' -57.6 NC_004065.1 + 31078 0.69 0.796063
Target:  5'- cGCGgCUGGUgGCCACgGGCggCGAUCa- -3'
miRNA:   3'- -CGCaGGCCA-UGGUGgCCGa-GCUAGca -5'
16228 5' -57.6 NC_004065.1 + 35702 0.67 0.907608
Target:  5'- cGCGUCgcgaccuggaagacUGGUACCGCUGGCgacucggcgccaGAUCGc -3'
miRNA:   3'- -CGCAG--------------GCCAUGGUGGCCGag----------CUAGCa -5'
16228 5' -57.6 NC_004065.1 + 36110 0.66 0.922522
Target:  5'- gGCGgcaaCGGggccGCUGCCGGCggCGGUUGUg -3'
miRNA:   3'- -CGCag--GCCa---UGGUGGCCGa-GCUAGCA- -5'
16228 5' -57.6 NC_004065.1 + 39936 0.72 0.676277
Target:  5'- cGCGauccUCCGGUGCCG-CGGCUCauuGUCGg -3'
miRNA:   3'- -CGC----AGGCCAUGGUgGCCGAGc--UAGCa -5'
16228 5' -57.6 NC_004065.1 + 41413 0.69 0.820309
Target:  5'- cGCGgaaguucUCCGGcgACgACCGGCUCGAgauggaCGUc -3'
miRNA:   3'- -CGC-------AGGCCa-UGgUGGCCGAGCUa-----GCA- -5'
16228 5' -57.6 NC_004065.1 + 43392 0.66 0.937256
Target:  5'- gGCGgcCCG--ACCACCcGUUCGAUCGUc -3'
miRNA:   3'- -CGCa-GGCcaUGGUGGcCGAGCUAGCA- -5'
16228 5' -57.6 NC_004065.1 + 45163 0.68 0.85234
Target:  5'- gGCGUCCc--GCCGCCcGCUCGAcUCGa -3'
miRNA:   3'- -CGCAGGccaUGGUGGcCGAGCU-AGCa -5'
16228 5' -57.6 NC_004065.1 + 53236 0.68 0.880687
Target:  5'- -gGUCCaacgcgcuCCGCCGGCgCGAUCGUg -3'
miRNA:   3'- cgCAGGccau----GGUGGCCGaGCUAGCA- -5'
16228 5' -57.6 NC_004065.1 + 63879 0.68 0.866894
Target:  5'- gGCG-CCGcUGCCGCCGGCgcCGA-CGUc -3'
miRNA:   3'- -CGCaGGCcAUGGUGGCCGa-GCUaGCA- -5'
16228 5' -57.6 NC_004065.1 + 65468 0.71 0.705028
Target:  5'- aGCGgUCGGcgccGCCGCCGGCUCGAcacagCGa -3'
miRNA:   3'- -CGCaGGCCa---UGGUGGCCGAGCUa----GCa -5'
16228 5' -57.6 NC_004065.1 + 90153 0.67 0.887286
Target:  5'- uCGUCCGuccUGCCGCCGGCUCcgcCGc -3'
miRNA:   3'- cGCAGGCc--AUGGUGGCCGAGcuaGCa -5'
16228 5' -57.6 NC_004065.1 + 97935 0.68 0.866894
Target:  5'- cGCGUCCGG---CACCGGCguggcagCGGUgGg -3'
miRNA:   3'- -CGCAGGCCaugGUGGCCGa------GCUAgCa -5'
16228 5' -57.6 NC_004065.1 + 98004 0.69 0.829176
Target:  5'- uCGUCgUGGgucaccACCGCCGGCgcguggCGGUCGUu -3'
miRNA:   3'- cGCAG-GCCa-----UGGUGGCCGa-----GCUAGCA- -5'
16228 5' -57.6 NC_004065.1 + 102137 0.68 0.880687
Target:  5'- uGCGUgCGGagGCagacCCGGCUCGAcCGUc -3'
miRNA:   3'- -CGCAgGCCa-UGgu--GGCCGAGCUaGCA- -5'
16228 5' -57.6 NC_004065.1 + 109868 0.7 0.751731
Target:  5'- cCGggCGGUGCCACCGGCgUCGccgCGg -3'
miRNA:   3'- cGCagGCCAUGGUGGCCG-AGCua-GCa -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.