miRNA display CGI


Results 1 - 20 of 31 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
12481 3' -55.5 NC_003324.1 + 49168 1.07 0.001297
Target:  5'- aCCGAAGGCACCAUCGACAGCCUCGAUc -3'
miRNA:   3'- -GGCUUCCGUGGUAGCUGUCGGAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 28980 0.68 0.611151
Target:  5'- aCCGAAuGCAUCuucacCGGCAGCgUCGAUu -3'
miRNA:   3'- -GGCUUcCGUGGua---GCUGUCGgAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 47568 0.67 0.633079
Target:  5'- aCGAGGGC-CgAUCGACccucGCCgUCGAg -3'
miRNA:   3'- gGCUUCCGuGgUAGCUGu---CGG-AGCUa -5'
12481 3' -55.5 NC_003324.1 + 44682 0.67 0.665939
Target:  5'- gUCGAucGUGgUGUUGGCAGCCUCGAc -3'
miRNA:   3'- -GGCUucCGUgGUAGCUGUCGGAGCUa -5'
12481 3' -55.5 NC_003324.1 + 50190 0.66 0.709261
Target:  5'- gCCauGGGCAUCAgcgacaagUCGGCgAGCCUUGAa -3'
miRNA:   3'- -GGcuUCCGUGGU--------AGCUG-UCGGAGCUa -5'
12481 3' -55.5 NC_003324.1 + 44314 0.66 0.709261
Target:  5'- gCGguGGCGCgGcCGAUAGCCUCu-- -3'
miRNA:   3'- gGCuuCCGUGgUaGCUGUCGGAGcua -5'
12481 3' -55.5 NC_003324.1 + 38943 0.66 0.719931
Target:  5'- -aGuAGGCGCCGucUCGACccuuGGCCgUCGAUu -3'
miRNA:   3'- ggCuUCCGUGGU--AGCUG----UCGG-AGCUA- -5'
12481 3' -55.5 NC_003324.1 + 41456 0.66 0.730515
Target:  5'- aCCGAAGGCGgCAUUGGuaaggggacgcgUAGCCaCGGg -3'
miRNA:   3'- -GGCUUCCGUgGUAGCU------------GUCGGaGCUa -5'
12481 3' -55.5 NC_003324.1 + 29362 0.66 0.730515
Target:  5'- cCUGAuaGGGCuuGCCcUCGucggugacgacaACGGCCUCGGUa -3'
miRNA:   3'- -GGCU--UCCG--UGGuAGC------------UGUCGGAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 20593 0.68 0.600209
Target:  5'- uCCGGugcuguGGCGCCGUCGcCAGUgacUUCGAc -3'
miRNA:   3'- -GGCUu-----CCGUGGUAGCuGUCG---GAGCUa -5'
12481 3' -55.5 NC_003324.1 + 20155 0.68 0.600209
Target:  5'- aUCG-AGGCucgauCCAgaacgcugcCGGCAGCCUCGGUc -3'
miRNA:   3'- -GGCuUCCGu----GGUa--------GCUGUCGGAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 19002 0.72 0.344434
Target:  5'- aCGgcGGCugCAcgCGGCuGGCCUCGAa -3'
miRNA:   3'- gGCuuCCGugGUa-GCUG-UCGGAGCUa -5'
12481 3' -55.5 NC_003324.1 + 56178 0.7 0.474258
Target:  5'- cUCGAuGGCACCuucaauccggaaaaCGGCAGCCUCGc- -3'
miRNA:   3'- -GGCUuCCGUGGua------------GCUGUCGGAGCua -5'
12481 3' -55.5 NC_003324.1 + 31763 0.69 0.50392
Target:  5'- aCUGggGGCGCCAaCGccugcCGGCCUCu-- -3'
miRNA:   3'- -GGCuuCCGUGGUaGCu----GUCGGAGcua -5'
12481 3' -55.5 NC_003324.1 + 23674 0.69 0.528003
Target:  5'- gCCGGuauccacGGcGCGCCgggcuucacaucgauGUCGACuGCCUCGAUg -3'
miRNA:   3'- -GGCU-------UC-CGUGG---------------UAGCUGuCGGAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 51739 0.68 0.56434
Target:  5'- gCCGAGGGCGCCAagcaguauucgagcUCGACgaAGCUUUc-- -3'
miRNA:   3'- -GGCUUCCGUGGU--------------AGCUG--UCGGAGcua -5'
12481 3' -55.5 NC_003324.1 + 38346 0.68 0.578416
Target:  5'- aCGAGGGCACCGgggCGGCGcuggucGCCgUCGu- -3'
miRNA:   3'- gGCUUCCGUGGUa--GCUGU------CGG-AGCua -5'
12481 3' -55.5 NC_003324.1 + 12082 0.68 0.589294
Target:  5'- aCCGGuaagacGGGCACCGgucuguaccugaUCGcggagcgcGCGGCCUCGGc -3'
miRNA:   3'- -GGCU------UCCGUGGU------------AGC--------UGUCGGAGCUa -5'
12481 3' -55.5 NC_003324.1 + 41305 0.68 0.593656
Target:  5'- gCCGugcGGCcuuuCCAUCGcgaucacgaugucgaACGGCCUCGAa -3'
miRNA:   3'- -GGCuu-CCGu---GGUAGC---------------UGUCGGAGCUa -5'
12481 3' -55.5 NC_003324.1 + 56251 0.72 0.344434
Target:  5'- uUGAAGGUGCCAUCGAggaaCAGCUcCGAUc -3'
miRNA:   3'- gGCUUCCGUGGUAGCU----GUCGGaGCUA- -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.