miRNA display CGI


Results 1 - 20 of 25 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
18759 5' -59.8 NC_004683.1 + 1480 0.66 0.519917
Target:  5'- aGCGG-GGCGUcCUCGAucGCCGGcuugucguGCCAg -3'
miRNA:   3'- cCGCUaCCGCA-GAGCU--UGGCCc-------CGGU- -5'
18759 5' -59.8 NC_004683.1 + 18511 0.66 0.519917
Target:  5'- aGCGGcaccGCGUUcaugUUGAACCGGGGCa- -3'
miRNA:   3'- cCGCUac--CGCAG----AGCUUGGCCCCGgu -5'
18759 5' -59.8 NC_004683.1 + 51356 0.66 0.509829
Target:  5'- cGGCGAUGaGUGccucaccggccuUCUCccAGCCGaGGGCCu -3'
miRNA:   3'- -CCGCUAC-CGC------------AGAGc-UUGGC-CCCGGu -5'
18759 5' -59.8 NC_004683.1 + 17312 0.66 0.506819
Target:  5'- --aGAUGGC--CUCGAcguuguacgggggcGCCGGGGUCGg -3'
miRNA:   3'- ccgCUACCGcaGAGCU--------------UGGCCCCGGU- -5'
18759 5' -59.8 NC_004683.1 + 31798 0.66 0.498828
Target:  5'- -aUGGUGGUGUCUCcgauguaGAACCGcccuaGGCCAa -3'
miRNA:   3'- ccGCUACCGCAGAG-------CUUGGCc----CCGGU- -5'
18759 5' -59.8 NC_004683.1 + 2132 0.67 0.469388
Target:  5'- uGGUGGUGGCGgg-CGuGGCCGugcuggcGGGCCu -3'
miRNA:   3'- -CCGCUACCGCagaGC-UUGGC-------CCCGGu -5'
18759 5' -59.8 NC_004683.1 + 6472 0.67 0.459773
Target:  5'- cGCGGUGucGCuGUCgUCGAacaggucGCCGGGGCgCAc -3'
miRNA:   3'- cCGCUAC--CG-CAG-AGCU-------UGGCCCCG-GU- -5'
18759 5' -59.8 NC_004683.1 + 40977 0.67 0.451209
Target:  5'- cGGgGAUGuaGUaaggCGAAUCGGGGCa- -3'
miRNA:   3'- -CCgCUACcgCAga--GCUUGGCCCCGgu -5'
18759 5' -59.8 NC_004683.1 + 6554 0.67 0.441797
Target:  5'- cGGCGcUGGCGUcCUCGAcGCUGGcGCg- -3'
miRNA:   3'- -CCGCuACCGCA-GAGCU-UGGCCcCGgu -5'
18759 5' -59.8 NC_004683.1 + 431 0.67 0.431574
Target:  5'- aGGCGGUGGCuggcgcggcgGUCgaggCGGAuCCGGuggacgaguugaaGGCCAg -3'
miRNA:   3'- -CCGCUACCG----------CAGa---GCUU-GGCC-------------CCGGU- -5'
18759 5' -59.8 NC_004683.1 + 26786 0.68 0.414246
Target:  5'- cGCGAUgccgccGGCGcaCUCGAcgugacACCGGGGCg- -3'
miRNA:   3'- cCGCUA------CCGCa-GAGCU------UGGCCCCGgu -5'
18759 5' -59.8 NC_004683.1 + 36991 0.68 0.4053
Target:  5'- gGGCGAUGGCGgauUCUCGAccacACCGucuCCAg -3'
miRNA:   3'- -CCGCUACCGC---AGAGCU----UGGCcccGGU- -5'
18759 5' -59.8 NC_004683.1 + 2369 0.68 0.396477
Target:  5'- cGGUGGUGGCGUCccgCGGauccagcagacACUGGccGGCCc -3'
miRNA:   3'- -CCGCUACCGCAGa--GCU-----------UGGCC--CCGGu -5'
18759 5' -59.8 NC_004683.1 + 13120 0.68 0.387778
Target:  5'- uGGC--UGGCGUUgaaucccaccCGGaagucGCCGGGGCCAc -3'
miRNA:   3'- -CCGcuACCGCAGa---------GCU-----UGGCCCCGGU- -5'
18759 5' -59.8 NC_004683.1 + 28040 0.68 0.370761
Target:  5'- gGGCGAgacauUGGCGcCgcccggCGAGgCaGGGGCCGu -3'
miRNA:   3'- -CCGCU-----ACCGCaGa-----GCUUgG-CCCCGGU- -5'
18759 5' -59.8 NC_004683.1 + 21945 0.69 0.362446
Target:  5'- cGGCGGUGGCGgg-CGGccGCCGaguucaccGGCCAg -3'
miRNA:   3'- -CCGCUACCGCagaGCU--UGGCc-------CCGGU- -5'
18759 5' -59.8 NC_004683.1 + 23917 0.69 0.346208
Target:  5'- aGGCG-UGGCGgccgacggcaUCgUCGGGCCGGucaccuGGCCAa -3'
miRNA:   3'- -CCGCuACCGC----------AG-AGCUUGGCC------CCGGU- -5'
18759 5' -59.8 NC_004683.1 + 54136 0.69 0.338287
Target:  5'- cGGCGuUGGCGUCggagCGGAgCuGGGCgAg -3'
miRNA:   3'- -CCGCuACCGCAGa---GCUUgGcCCCGgU- -5'
18759 5' -59.8 NC_004683.1 + 42046 0.7 0.286558
Target:  5'- cGGCGAgGGCaacaUCggCGAACCGGuGGUCAc -3'
miRNA:   3'- -CCGCUaCCGc---AGa-GCUUGGCC-CCGGU- -5'
18759 5' -59.8 NC_004683.1 + 31318 0.73 0.189023
Target:  5'- uGGCGGUGGCGg--CGAugucGCCgugaugggugaagucGGGGCCAc -3'
miRNA:   3'- -CCGCUACCGCagaGCU----UGG---------------CCCCGGU- -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.