miRNA display CGI


Results 1 - 20 of 36 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
28435 3' -64.6 NC_005946.1 + 56346 0.66 0.454843
Target:  5'- -gGCCGCCAgCCUggaggacGCUGCCCUGGuCc -3'
miRNA:   3'- ggUGGCGGUgGGGa------CGGCGGGGUCuG- -5'
28435 3' -64.6 NC_005946.1 + 94437 0.66 0.454843
Target:  5'- cUCGCCGCCcuggugagGgCCCUGCC-UUCCGGAUc -3'
miRNA:   3'- -GGUGGCGG--------UgGGGACGGcGGGGUCUG- -5'
28435 3' -64.6 NC_005946.1 + 94373 0.66 0.445992
Target:  5'- aCACUGUgGCCagaGCCGUCCCAGuCu -3'
miRNA:   3'- gGUGGCGgUGGggaCGGCGGGGUCuG- -5'
28435 3' -64.6 NC_005946.1 + 94008 0.66 0.437239
Target:  5'- gCCAgggcCCGCagggaCGCCCCgGCCGUCCU-GACu -3'
miRNA:   3'- -GGU----GGCG-----GUGGGGaCGGCGGGGuCUG- -5'
28435 3' -64.6 NC_005946.1 + 60369 0.66 0.428585
Target:  5'- gUCAgCGCCGCCCCaGCCacucccGCUCCcacagaAGACc -3'
miRNA:   3'- -GGUgGCGGUGGGGaCGG------CGGGG------UCUG- -5'
28435 3' -64.6 NC_005946.1 + 60471 0.66 0.428585
Target:  5'- cCCACCGCCGgagaCCCggUGCCuauagcaggaGUCCCAGuCc -3'
miRNA:   3'- -GGUGGCGGUg---GGG--ACGG----------CGGGGUCuG- -5'
28435 3' -64.6 NC_005946.1 + 92308 0.66 0.420033
Target:  5'- aCCACCuCgUACCCC-GCaGCCuCCAGACc -3'
miRNA:   3'- -GGUGGcG-GUGGGGaCGgCGG-GGUCUG- -5'
28435 3' -64.6 NC_005946.1 + 24128 0.66 0.420033
Target:  5'- uCCACUcCCACgaaCCUGCCuCCCCucacGACg -3'
miRNA:   3'- -GGUGGcGGUGg--GGACGGcGGGGu---CUG- -5'
28435 3' -64.6 NC_005946.1 + 61475 0.66 0.420033
Target:  5'- cCCGagagggaCGCCGCCCUgGCCGacaggaugcuCCUCAGGCc -3'
miRNA:   3'- -GGUg------GCGGUGGGGaCGGC----------GGGGUCUG- -5'
28435 3' -64.6 NC_005946.1 + 2245 0.66 0.411585
Target:  5'- cCCACaGggGCCCCgaccaggacGCCGCCCUGGGCu -3'
miRNA:   3'- -GGUGgCggUGGGGa--------CGGCGGGGUCUG- -5'
28435 3' -64.6 NC_005946.1 + 102572 0.66 0.410746
Target:  5'- uCC-CCGCCAgagaguaucUCCCUGguccugaCUGCCuCCAGGCa -3'
miRNA:   3'- -GGuGGCGGU---------GGGGAC-------GGCGG-GGUCUG- -5'
28435 3' -64.6 NC_005946.1 + 63220 0.67 0.403243
Target:  5'- aCGCUGCCcacgcucuuuuuGCCCUUG-CGUCCCGGGg -3'
miRNA:   3'- gGUGGCGG------------UGGGGACgGCGGGGUCUg -5'
28435 3' -64.6 NC_005946.1 + 45070 0.67 0.403243
Target:  5'- gCCuCUGCC-UCUCUGCCGCCugCCuGACu -3'
miRNA:   3'- -GGuGGCGGuGGGGACGGCGG--GGuCUG- -5'
28435 3' -64.6 NC_005946.1 + 48621 0.67 0.395009
Target:  5'- gCCAUgGCCGCCCUcuccucgGCCuGCUCCucGGCa -3'
miRNA:   3'- -GGUGgCGGUGGGGa------CGG-CGGGGu-CUG- -5'
28435 3' -64.6 NC_005946.1 + 75005 0.67 0.386884
Target:  5'- aC-CCGCgGCUCCagcGCUGCCCCuGAUg -3'
miRNA:   3'- gGuGGCGgUGGGGa--CGGCGGGGuCUG- -5'
28435 3' -64.6 NC_005946.1 + 104502 0.67 0.379667
Target:  5'- aCGCgGCCACCCUgccccaguuuacaacGCCGUcuCCCAGGa -3'
miRNA:   3'- gGUGgCGGUGGGGa--------------CGGCG--GGGUCUg -5'
28435 3' -64.6 NC_005946.1 + 81709 0.68 0.347947
Target:  5'- aCGCC-CUACCCCUgGCCGCCagcaucgccacUCAGAg -3'
miRNA:   3'- gGUGGcGGUGGGGA-CGGCGG-----------GGUCUg -5'
28435 3' -64.6 NC_005946.1 + 47077 0.68 0.340503
Target:  5'- gCCGCCGCaaACCCCaucaUGCC-CCUguGGCg -3'
miRNA:   3'- -GGUGGCGg-UGGGG----ACGGcGGGguCUG- -5'
28435 3' -64.6 NC_005946.1 + 11082 0.68 0.340503
Target:  5'- gCCGCCGCCAgCCCCaggGUcucguacaCGUCCCAcACg -3'
miRNA:   3'- -GGUGGCGGU-GGGGa--CG--------GCGGGGUcUG- -5'
28435 3' -64.6 NC_005946.1 + 10410 0.68 0.323822
Target:  5'- aCCGCCGCCGCguaggaccucgccaCCCUcuCC-CUCCAGGCa -3'
miRNA:   3'- -GGUGGCGGUG--------------GGGAc-GGcGGGGUCUG- -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.