miRNA display CGI


Results 1 - 18 of 18 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
5144 5' -57.5 NC_001798.1 + 112842 0.66 0.851616
Target:  5'- uGGGUGUGaauuuCGGGGGuuCCGGGCCCaacgGCc -3'
miRNA:   3'- cUCCACAU-----GUCCCU--GGUCUGGGa---CGu -5'
5144 5' -57.5 NC_001798.1 + 31151 0.66 0.843654
Target:  5'- cGGGGgcggcgGUGCGGGGGC--GACCC-GCGg -3'
miRNA:   3'- -CUCCa-----CAUGUCCCUGguCUGGGaCGU- -5'
5144 5' -57.5 NC_001798.1 + 102489 0.66 0.835501
Target:  5'- cGGGUaGUGCGGGGA-CGGGCCg-GCGc -3'
miRNA:   3'- cUCCA-CAUGUCCCUgGUCUGGgaCGU- -5'
5144 5' -57.5 NC_001798.1 + 136600 0.66 0.835501
Target:  5'- ----cGUGCGGGGGaCGGGCCCggGCAa -3'
miRNA:   3'- cuccaCAUGUCCCUgGUCUGGGa-CGU- -5'
5144 5' -57.5 NC_001798.1 + 58622 0.66 0.827164
Target:  5'- -cGGUG-GCGGGGA-CAGGCCUUGgAa -3'
miRNA:   3'- cuCCACaUGUCCCUgGUCUGGGACgU- -5'
5144 5' -57.5 NC_001798.1 + 63273 0.66 0.827164
Target:  5'- cGGGGgcgGaaUACAGGGGCugcauauggauCAGGCCCaGCAg -3'
miRNA:   3'- -CUCCa--C--AUGUCCCUG-----------GUCUGGGaCGU- -5'
5144 5' -57.5 NC_001798.1 + 153077 0.67 0.801122
Target:  5'- cGGGcGgagcgGCGGGGcggcGCCGGGCCCUcGCGg -3'
miRNA:   3'- cUCCaCa----UGUCCC----UGGUCUGGGA-CGU- -5'
5144 5' -57.5 NC_001798.1 + 149456 0.67 0.77184
Target:  5'- aGGGUGcggcggcuccacGCGGGGGCCGcGGCCCgcaGCAg -3'
miRNA:   3'- cUCCACa-----------UGUCCCUGGU-CUGGGa--CGU- -5'
5144 5' -57.5 NC_001798.1 + 106907 0.67 0.764309
Target:  5'- cAGGUGcu-GGGGGCCuccgAGACCCUGaCGa -3'
miRNA:   3'- cUCCACaugUCCCUGG----UCUGGGAC-GU- -5'
5144 5' -57.5 NC_001798.1 + 85286 0.68 0.73544
Target:  5'- cGGGGgg-GCGGGGGCCGGgguccGCCC-GCGg -3'
miRNA:   3'- -CUCCacaUGUCCCUGGUC-----UGGGaCGU- -5'
5144 5' -57.5 NC_001798.1 + 12279 0.68 0.724639
Target:  5'- -cGGUGgcGCAGacccacaggcccaGGaucGCCAGGCCCUGCAg -3'
miRNA:   3'- cuCCACa-UGUC-------------CC---UGGUCUGGGACGU- -5'
5144 5' -57.5 NC_001798.1 + 75459 0.69 0.695738
Target:  5'- cGGGGUGgcCGGcccGGCCGcGGCCCUGCu -3'
miRNA:   3'- -CUCCACauGUCc--CUGGU-CUGGGACGu -5'
5144 5' -57.5 NC_001798.1 + 41649 0.69 0.675532
Target:  5'- uGAGGUGcUGgAGGGAgCGGACCgCgaGCAu -3'
miRNA:   3'- -CUCCAC-AUgUCCCUgGUCUGG-Ga-CGU- -5'
5144 5' -57.5 NC_001798.1 + 151176 0.69 0.665371
Target:  5'- gGGGGUGggcgACAGGG-CgCGGACCgUGUg -3'
miRNA:   3'- -CUCCACa---UGUCCCuG-GUCUGGgACGu -5'
5144 5' -57.5 NC_001798.1 + 134637 0.7 0.604136
Target:  5'- cGAGGUGUGCgAGGucGGCCugcGGCCCcGCGg -3'
miRNA:   3'- -CUCCACAUG-UCC--CUGGu--CUGGGaCGU- -5'
5144 5' -57.5 NC_001798.1 + 64509 0.71 0.563619
Target:  5'- gGGGGUGgGCGGGGuCCAGGCaagGCAg -3'
miRNA:   3'- -CUCCACaUGUCCCuGGUCUGggaCGU- -5'
5144 5' -57.5 NC_001798.1 + 12897 0.77 0.262936
Target:  5'- -uGGUGUACGGGGGCUugGGGCCgUGCc -3'
miRNA:   3'- cuCCACAUGUCCCUGG--UCUGGgACGu -5'
5144 5' -57.5 NC_001798.1 + 125795 1.09 0.001998
Target:  5'- cGAGGUGUACAGGGACCAGACCCUGCAg -3'
miRNA:   3'- -CUCCACAUGUCCCUGGUCUGGGACGU- -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.