miRNA display CGI


Results 1 - 20 of 56 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
18146 3' -54.6 NC_004680.1 + 46480 0.66 0.804885
Target:  5'- uGCGGAucugccccggACACccgCugCCGCGCCa-AGUCGg -3'
miRNA:   3'- -CGCCU----------UGUG---GugGGCGUGGagUUAGC- -5'
18146 3' -54.6 NC_004680.1 + 32660 0.66 0.804885
Target:  5'- cGCGGAu--CCACCCGCcaacACC-CAcgCu -3'
miRNA:   3'- -CGCCUuguGGUGGGCG----UGGaGUuaGc -5'
18146 3' -54.6 NC_004680.1 + 39580 0.66 0.804885
Target:  5'- aCGGAuCGCUACCgCGCcaGCCUCAu--- -3'
miRNA:   3'- cGCCUuGUGGUGG-GCG--UGGAGUuagc -5'
18146 3' -54.6 NC_004680.1 + 26110 0.66 0.795334
Target:  5'- gGCuGGAACGCCACcguccucuucaCCGCAggaaccguCCUCAccGUCu -3'
miRNA:   3'- -CG-CCUUGUGGUG-----------GGCGU--------GGAGU--UAGc -5'
18146 3' -54.6 NC_004680.1 + 35939 0.66 0.795334
Target:  5'- cCGGGgcGCAUCACCCGaaCugCUCGccgccAUCGa -3'
miRNA:   3'- cGCCU--UGUGGUGGGC--GugGAGU-----UAGC- -5'
18146 3' -54.6 NC_004680.1 + 14420 0.66 0.795334
Target:  5'- aGCGGAccaaacuccacAUACuCAUCCGCGCCgggaCcGUCGu -3'
miRNA:   3'- -CGCCU-----------UGUG-GUGGGCGUGGa---GuUAGC- -5'
18146 3' -54.6 NC_004680.1 + 21139 0.66 0.785615
Target:  5'- cGCGGggUA-UACCCGCAUUUgGGUgCGg -3'
miRNA:   3'- -CGCCuuGUgGUGGGCGUGGAgUUA-GC- -5'
18146 3' -54.6 NC_004680.1 + 39849 0.66 0.785615
Target:  5'- aCGGAGCGCCGCagggaGCGCCgCAGa-- -3'
miRNA:   3'- cGCCUUGUGGUGgg---CGUGGaGUUagc -5'
18146 3' -54.6 NC_004680.1 + 31114 0.66 0.785615
Target:  5'- aGCGGGGCGgC-CCCGUaACCUCuccugaaguUCGa -3'
miRNA:   3'- -CGCCUUGUgGuGGGCG-UGGAGuu-------AGC- -5'
18146 3' -54.6 NC_004680.1 + 34070 0.66 0.785615
Target:  5'- cGCGGAacACGCCACgCCaCACgUCGuaGUCc -3'
miRNA:   3'- -CGCCU--UGUGGUG-GGcGUGgAGU--UAGc -5'
18146 3' -54.6 NC_004680.1 + 55184 0.66 0.775739
Target:  5'- cGUGGAACGCUacugACCUGUACCggcCAccGUCc -3'
miRNA:   3'- -CGCCUUGUGG----UGGGCGUGGa--GU--UAGc -5'
18146 3' -54.6 NC_004680.1 + 19847 0.66 0.775739
Target:  5'- cCGGAucugACGCC-CCCGaCGCCUCcaacGUUGg -3'
miRNA:   3'- cGCCU----UGUGGuGGGC-GUGGAGu---UAGC- -5'
18146 3' -54.6 NC_004680.1 + 43562 0.66 0.765716
Target:  5'- -gGGAACGCUG-CCGCugCUCcgaauAUCGa -3'
miRNA:   3'- cgCCUUGUGGUgGGCGugGAGu----UAGC- -5'
18146 3' -54.6 NC_004680.1 + 19291 0.66 0.764707
Target:  5'- aCGGcACAUCGCCCGagcgggucaccgaCGCCUucaCAAUCGa -3'
miRNA:   3'- cGCCuUGUGGUGGGC-------------GUGGA---GUUAGC- -5'
18146 3' -54.6 NC_004680.1 + 20872 0.67 0.755559
Target:  5'- uGCGGGacaACGCCauggGCCUGuCACCggAGUCGu -3'
miRNA:   3'- -CGCCU---UGUGG----UGGGC-GUGGagUUAGC- -5'
18146 3' -54.6 NC_004680.1 + 40093 0.67 0.755559
Target:  5'- uGgGGGugACgGCCCGCugCgUCAGcCGu -3'
miRNA:   3'- -CgCCUugUGgUGGGCGugG-AGUUaGC- -5'
18146 3' -54.6 NC_004680.1 + 18208 0.67 0.755559
Target:  5'- aCGG--CACCACCUGCaACCg-GAUCGg -3'
miRNA:   3'- cGCCuuGUGGUGGGCG-UGGagUUAGC- -5'
18146 3' -54.6 NC_004680.1 + 46448 0.67 0.754536
Target:  5'- aCGGuguuaccAGCACCGCCCGgGCCgucuUCGu -3'
miRNA:   3'- cGCC-------UUGUGGUGGGCgUGGaguuAGC- -5'
18146 3' -54.6 NC_004680.1 + 38846 0.67 0.745277
Target:  5'- gGCGGGGgaACCauGCCCGCGCCgggacCAAUg- -3'
miRNA:   3'- -CGCCUUg-UGG--UGGGCGUGGa----GUUAgc -5'
18146 3' -54.6 NC_004680.1 + 6008 0.67 0.745277
Target:  5'- gGCGGGuguuCACCACCgGgGCCacUCGGgugCGg -3'
miRNA:   3'- -CGCCUu---GUGGUGGgCgUGG--AGUUa--GC- -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.