miRNA display CGI


Results 1 - 20 of 24 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
28389 5' -58.5 NC_005946.1 + 77810 0.66 0.671394
Target:  5'- gUCAGCUGCGuCCucaGGCUcuuUAC-CCAGCUg -3'
miRNA:   3'- uGGUCGACGU-GG---UCGG---AUGuGGUCGA- -5'
28389 5' -58.5 NC_005946.1 + 51546 0.66 0.660902
Target:  5'- uGCCaaAGCUGCACCaucAGUUaaUGCuCCAGCa -3'
miRNA:   3'- -UGG--UCGACGUGG---UCGG--AUGuGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 68992 0.66 0.650385
Target:  5'- aGCCuGCaggcGCACCGGUCUuuguCcCCAGCUg -3'
miRNA:   3'- -UGGuCGa---CGUGGUCGGAu---GuGGUCGA- -5'
28389 5' -58.5 NC_005946.1 + 67533 0.67 0.629314
Target:  5'- cACUGGUggcagGCgaaGCCGGCCUugACCAGg- -3'
miRNA:   3'- -UGGUCGa----CG---UGGUCGGAugUGGUCga -5'
28389 5' -58.5 NC_005946.1 + 51493 0.67 0.625099
Target:  5'- cACCGGCagugacugcaaagGCACCAGCCUuuacaggauuuACACCcuucaAGCc -3'
miRNA:   3'- -UGGUCGa------------CGUGGUCGGA-----------UGUGG-----UCGa -5'
28389 5' -58.5 NC_005946.1 + 9166 0.67 0.618778
Target:  5'- cCCAGCa-CGCCGuCCUGCACCAGg- -3'
miRNA:   3'- uGGUCGacGUGGUcGGAUGUGGUCga -5'
28389 5' -58.5 NC_005946.1 + 98203 0.67 0.597745
Target:  5'- gACCauguGGaCUGgGgCGGCCUGCACCuGCUc -3'
miRNA:   3'- -UGG----UC-GACgUgGUCGGAUGUGGuCGA- -5'
28389 5' -58.5 NC_005946.1 + 61649 0.67 0.597745
Target:  5'- uACCAcGCUGCACUgggGGCCUuuuUCGGCa -3'
miRNA:   3'- -UGGU-CGACGUGG---UCGGAuguGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 47447 0.67 0.586219
Target:  5'- uGCCuugaagaAGaCUGCGCCuucggcgugagcGGUCUGCGCCGGCc -3'
miRNA:   3'- -UGG-------UC-GACGUGG------------UCGGAUGUGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 19610 0.69 0.475725
Target:  5'- gACCGGCUGCcccgACCuGUCUGC-CgCAGCg -3'
miRNA:   3'- -UGGUCGACG----UGGuCGGAUGuG-GUCGa -5'
28389 5' -58.5 NC_005946.1 + 2866 0.7 0.42854
Target:  5'- cGCCGGCUGgGCCAcuaggcccgacGCCgugUGCGCCAGgUa -3'
miRNA:   3'- -UGGUCGACgUGGU-----------CGG---AUGUGGUCgA- -5'
28389 5' -58.5 NC_005946.1 + 42273 0.7 0.410452
Target:  5'- gACCcGCgGgACCAGUCU-CACCAGCg -3'
miRNA:   3'- -UGGuCGaCgUGGUCGGAuGUGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 59208 0.71 0.351039
Target:  5'- gGCCAGa--CACCgcGGCCUGCGCCuGCUg -3'
miRNA:   3'- -UGGUCgacGUGG--UCGGAUGUGGuCGA- -5'
28389 5' -58.5 NC_005946.1 + 51163 0.73 0.277237
Target:  5'- cACCAGC---ACCAG-CUGCACCAGCUg -3'
miRNA:   3'- -UGGUCGacgUGGUCgGAUGUGGUCGA- -5'
28389 5' -58.5 NC_005946.1 + 37343 0.74 0.264051
Target:  5'- aACCGGCggGCACCAaagcGUCUGCuauCCAGCa -3'
miRNA:   3'- -UGGUCGa-CGUGGU----CGGAUGu--GGUCGa -5'
28389 5' -58.5 NC_005946.1 + 51385 0.75 0.224133
Target:  5'- cACCAGCUacaccaGCACCAGCagugacugcaaagGCACCAGCc -3'
miRNA:   3'- -UGGUCGA------CGUGGUCGga-----------UGUGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 51053 0.75 0.221886
Target:  5'- uCCAGCaguuagUGCACCAGCCUcacuguuuGgACCAGCa -3'
miRNA:   3'- uGGUCG------ACGUGGUCGGA--------UgUGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 51105 0.76 0.178067
Target:  5'- cACCAGCUacaccaGCACCAGCagugacugcaaagGCACCAGCa -3'
miRNA:   3'- -UGGUCGA------CGUGGUCGga-----------UGUGGUCGa -5'
28389 5' -58.5 NC_005946.1 + 51226 0.85 0.046508
Target:  5'- cACCAGCUGCACCAGCaccagCUGCACCAGn- -3'
miRNA:   3'- -UGGUCGACGUGGUCG-----GAUGUGGUCga -5'
28389 5' -58.5 NC_005946.1 + 51286 0.93 0.010987
Target:  5'- cACCAGCUGCACCAGCaccagCUGCACCAGCa -3'
miRNA:   3'- -UGGUCGACGUGGUCG-----GAUGUGGUCGa -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.