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 + 1482 0.66 0.687706
Target:  5'- gCGAAGaacgcccaGCACCGUCGGC-GCaUCGAUg -3'
miRNA:   3'- gGCUUC--------CGUGGUAGCUGuCGgAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 48575 0.66 0.709261
Target:  5'- aUGAGGGCAaggacagcggCGUCG-CAGCgCUCGAUg -3'
miRNA:   3'- gGCUUCCGUg---------GUAGCuGUCG-GAGCUA- -5'
12481 3' -55.5 NC_003324.1 + 30384 0.66 0.719931
Target:  5'- uCCGGcgucgcuacAGGCAUguUCGGCGGCUUgGGc -3'
miRNA:   3'- -GGCU---------UCCGUGguAGCUGUCGGAgCUa -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 + 41456 0.66 0.730515
Target:  5'- aCCGAAGGCGgCAUUGGuaaggggacgcgUAGCCaCGGg -3'
miRNA:   3'- -GGCUUCCGUgGUAGCU------------GUCGGaGCUa -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 + 44314 0.66 0.709261
Target:  5'- gCGguGGCGCgGcCGAUAGCCUCu-- -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 + 55286 0.67 0.644046
Target:  5'- gCGAucagucauuGGGCACCAUCGACAuGgCgugggCGAg -3'
miRNA:   3'- gGCU---------UCCGUGGUAGCUGU-CgGa----GCUa -5'
12481 3' -55.5 NC_003324.1 + 30563 0.67 0.676844
Target:  5'- uCCGAGGGC-CUGcUCGGCGGCgC-CGAUu -3'
miRNA:   3'- -GGCUUCCGuGGU-AGCUGUCG-GaGCUA- -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 + 39415 0.68 0.578416
Target:  5'- uCCGAAGGCucGCCAgCG-CGGCUucUCGAc -3'
miRNA:   3'- -GGCUUCCG--UGGUaGCuGUCGG--AGCUa -5'
12481 3' -55.5 NC_003324.1 + 22099 0.68 0.589294
Target:  5'- gCGcAAGGCugCGcUCGACAugcGCCUCGu- -3'
miRNA:   3'- gGC-UUCCGugGU-AGCUGU---CGGAGCua -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 + 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 + 41305 0.68 0.593656
Target:  5'- gCCGugcGGCcuuuCCAUCGcgaucacgaugucgaACGGCCUCGAa -3'
miRNA:   3'- -GGCuu-CCGu---GGUAGC---------------UGUCGGAGCUa -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 + 38346 0.68 0.578416
Target:  5'- aCGAGGGCACCGgggCGGCGcuggucGCCgUCGu- -3'
miRNA:   3'- gGCUUCCGUGGUa--GCUGU------CGG-AGCua -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.