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
28515 5' -58.8 NC_005946.1 + 38187 0.68 0.590735
Target:  5'- --cACGGUGACcUCGGGCUGaGggacgucgGGCCc -3'
miRNA:   3'- acaUGCCGCUGuGGUCCGAC-Ca-------CCGG- -5'
28515 5' -58.8 NC_005946.1 + 46190 0.66 0.723398
Target:  5'- --cACGGUGGCgGCC-GGCUGGgcaagGGUa -3'
miRNA:   3'- acaUGCCGCUG-UGGuCCGACCa----CCGg -5'
28515 5' -58.8 NC_005946.1 + 92315 0.66 0.703365
Target:  5'- aGUACaGCguaaaguacGACuACCuGGUgagGGUGGCCu -3'
miRNA:   3'- aCAUGcCG---------CUG-UGGuCCGa--CCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 33215 0.66 0.703365
Target:  5'- cUGUGCGGCGugA-CGGGUgaccccguggGGUucgugagggaGGCCa -3'
miRNA:   3'- -ACAUGCCGCugUgGUCCGa---------CCA----------CCGG- -5'
28515 5' -58.8 NC_005946.1 + 33760 0.66 0.693253
Target:  5'- --gAUGGCc-CACgGGGCccugccggUGGUGGCCa -3'
miRNA:   3'- acaUGCCGcuGUGgUCCG--------ACCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 28653 0.66 0.693253
Target:  5'- aGUGCGGgccaGuCugCGGGCUGGa-GCCc -3'
miRNA:   3'- aCAUGCCg---CuGugGUCCGACCacCGG- -5'
28515 5' -58.8 NC_005946.1 + 85009 0.66 0.692239
Target:  5'- cUGU-CGGCcucaGACGCCcuggagcAGGCcgccgcGGUGGCCc -3'
miRNA:   3'- -ACAuGCCG----CUGUGG-------UCCGa-----CCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 103480 0.67 0.672884
Target:  5'- --cGCGGaccugauaGACAcCCAGGCccaGGUGGaCCa -3'
miRNA:   3'- acaUGCCg-------CUGU-GGUCCGa--CCACC-GG- -5'
28515 5' -58.8 NC_005946.1 + 89687 0.67 0.63181
Target:  5'- aGgagACGGUGGCACCGuccGCcaUGGaGGCCg -3'
miRNA:   3'- aCa--UGCCGCUGUGGUc--CG--ACCaCCGG- -5'
28515 5' -58.8 NC_005946.1 + 92730 0.78 0.153628
Target:  5'- --gGCGGUGGCAgucaccguccaCAGGCUGGUGGCUg -3'
miRNA:   3'- acaUGCCGCUGUg----------GUCCGACCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 92572 0.68 0.570352
Target:  5'- cUGcUGCuGGgGu--CCAGGgUGGUGGCCg -3'
miRNA:   3'- -AC-AUG-CCgCuguGGUCCgACCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 84773 0.7 0.481481
Target:  5'- cUGUcugACaGCGugAUCAGGCUGGgcaGGUCc -3'
miRNA:   3'- -ACA---UGcCGCugUGGUCCGACCa--CCGG- -5'
28515 5' -58.8 NC_005946.1 + 33099 0.7 0.472002
Target:  5'- uUGUGCuGGC--CACCgucAGGCUGGgaaagGGCCu -3'
miRNA:   3'- -ACAUG-CCGcuGUGG---UCCGACCa----CCGG- -5'
28515 5' -58.8 NC_005946.1 + 33146 0.7 0.462618
Target:  5'- --gAgGGCGcuccCGCCAGGCUGGcgUGGUCc -3'
miRNA:   3'- acaUgCCGCu---GUGGUCCGACC--ACCGG- -5'
28515 5' -58.8 NC_005946.1 + 49764 0.74 0.291895
Target:  5'- cGgggAUGGCGACugC-GGCU-GUGGCCg -3'
miRNA:   3'- aCa--UGCCGCUGugGuCCGAcCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 42168 0.74 0.291895
Target:  5'- cUGga-GGCGACGCUgucuGGGaUGGUGGCCu -3'
miRNA:   3'- -ACaugCCGCUGUGG----UCCgACCACCGG- -5'
28515 5' -58.8 NC_005946.1 + 26910 0.75 0.229676
Target:  5'- cGgagGCGGCGuACGCCAgGGCcGGgGGCCa -3'
miRNA:   3'- aCa--UGCCGC-UGUGGU-CCGaCCaCCGG- -5'
28515 5' -58.8 NC_005946.1 + 83708 0.77 0.19309
Target:  5'- --aGCGGCGGCuACCcucGGGCUGGcugcccUGGCCg -3'
miRNA:   3'- acaUGCCGCUG-UGG---UCCGACC------ACCGG- -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.