miRNA display CGI


Results 1 - 20 of 20 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
27965 5' -55.5 NC_005886.2 + 30769 0.66 0.670989
Target:  5'- cGCGGAcgUGCACCaauAGCCGUCAaccaucGCc -3'
miRNA:   3'- -UGCUUuaGCGUGG---UCGGCAGUgc----CGa -5'
27965 5' -55.5 NC_005886.2 + 5442 0.66 0.666554
Target:  5'- -----uUCGCGCCAGCCGacuuauucgcaagCAgGGCUu -3'
miRNA:   3'- ugcuuuAGCGUGGUCGGCa------------GUgCCGA- -5'
27965 5' -55.5 NC_005886.2 + 5815 0.66 0.659893
Target:  5'- -gGAAAUCGacgacaGCCgAGCCGcUCGCGGaCa -3'
miRNA:   3'- ugCUUUAGCg-----UGG-UCGGC-AGUGCC-Ga -5'
27965 5' -55.5 NC_005886.2 + 7252 0.66 0.659893
Target:  5'- uGCGAAGUacgccggcUGCGCUA-CCGUCAuCGGCc -3'
miRNA:   3'- -UGCUUUA--------GCGUGGUcGGCAGU-GCCGa -5'
27965 5' -55.5 NC_005886.2 + 35332 0.66 0.64543
Target:  5'- aACGGAAcgcuUCGgGCCGGCCGUCGaauucguacacuucCGGa- -3'
miRNA:   3'- -UGCUUU----AGCgUGGUCGGCAGU--------------GCCga -5'
27965 5' -55.5 NC_005886.2 + 39351 0.67 0.615351
Target:  5'- gUGAucuuGUCGCGCaa--CGUCGCGGCUu -3'
miRNA:   3'- uGCUu---UAGCGUGgucgGCAGUGCCGA- -5'
27965 5' -55.5 NC_005886.2 + 24447 0.67 0.615351
Target:  5'- cGCGAg--CGCGCCGGCCaGUgACGccGCg -3'
miRNA:   3'- -UGCUuuaGCGUGGUCGG-CAgUGC--CGa -5'
27965 5' -55.5 NC_005886.2 + 41815 0.67 0.561167
Target:  5'- cCGAA--CGCGCCGGCCGguaucgugcaaguugCugGGCc -3'
miRNA:   3'- uGCUUuaGCGUGGUCGGCa--------------GugCCGa -5'
27965 5' -55.5 NC_005886.2 + 15362 0.67 0.556792
Target:  5'- uAUGgcGUCGUcgacaaccaguauuGCCAGCCGUUuuuaaucgGCGGCg -3'
miRNA:   3'- -UGCuuUAGCG--------------UGGUCGGCAG--------UGCCGa -5'
27965 5' -55.5 NC_005886.2 + 41571 0.68 0.549161
Target:  5'- uCGgcGUCaGCGCCGGaCGUUGCGGCc -3'
miRNA:   3'- uGCuuUAG-CGUGGUCgGCAGUGCCGa -5'
27965 5' -55.5 NC_005886.2 + 11829 0.68 0.506256
Target:  5'- cACGucGAUCGCAUC-GUCGgCGCGGCUu -3'
miRNA:   3'- -UGCu-UUAGCGUGGuCGGCaGUGCCGA- -5'
27965 5' -55.5 NC_005886.2 + 13459 0.69 0.474016
Target:  5'- uGCGAAGaaagccgccgcgcUCGCAacgcugcaAGCCGUgACGGCUg -3'
miRNA:   3'- -UGCUUU-------------AGCGUgg------UCGGCAgUGCCGA- -5'
27965 5' -55.5 NC_005886.2 + 1078 0.69 0.464848
Target:  5'- uGCGAucgGAUggaUGCACaAGCCGUCGCGGgUg -3'
miRNA:   3'- -UGCU---UUA---GCGUGgUCGGCAGUGCCgA- -5'
27965 5' -55.5 NC_005886.2 + 41488 0.69 0.454772
Target:  5'- cCGAA--CGCACCGGCCGcaacgUC-CGGCg -3'
miRNA:   3'- uGCUUuaGCGUGGUCGGC-----AGuGCCGa -5'
27965 5' -55.5 NC_005886.2 + 43823 0.69 0.454772
Target:  5'- aACGc---UGCGCCAG-CGUCACGGCc -3'
miRNA:   3'- -UGCuuuaGCGUGGUCgGCAGUGCCGa -5'
27965 5' -55.5 NC_005886.2 + 34789 0.71 0.378749
Target:  5'- aACGugc-UGCACCGGCUGaUCACGGUg -3'
miRNA:   3'- -UGCuuuaGCGUGGUCGGC-AGUGCCGa -5'
27965 5' -55.5 NC_005886.2 + 27151 0.71 0.369862
Target:  5'- aACGGcccgcAUCGCGCgGGCCGUuucuacaucuaCGCGGCUu -3'
miRNA:   3'- -UGCUu----UAGCGUGgUCGGCA-----------GUGCCGA- -5'
27965 5' -55.5 NC_005886.2 + 41002 0.72 0.296452
Target:  5'- cGCGGAG-CGCGCa--CCGUCAUGGCUg -3'
miRNA:   3'- -UGCUUUaGCGUGgucGGCAGUGCCGA- -5'
27965 5' -55.5 NC_005886.2 + 16236 0.74 0.240515
Target:  5'- uGCGAAcgggcgcuucaacAUCGCGCCGGCCGUUGCGu-- -3'
miRNA:   3'- -UGCUU-------------UAGCGUGGUCGGCAGUGCcga -5'
27965 5' -55.5 NC_005886.2 + 13353 1.07 0.001113
Target:  5'- aACGAAAUCGCACCAGCCGUCACGGCUu -3'
miRNA:   3'- -UGCUUUAGCGUGGUCGGCAGUGCCGA- -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.