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
27231 3' -61 NC_005832.1 + 67076 0.66 0.57718
Target:  5'- cUGGAcGCCGaGGCccuGGAGGCCaCUCc -3'
miRNA:   3'- cACUUuCGGC-CCGac-CCUCCGG-GAGa -5'
27231 3' -61 NC_005832.1 + 42306 0.66 0.57718
Target:  5'- -gGGAGGCCGuGGCcaugugUGGGcugGGGUCCUUUu -3'
miRNA:   3'- caCUUUCGGC-CCG------ACCC---UCCGGGAGA- -5'
27231 3' -61 NC_005832.1 + 101881 0.66 0.567044
Target:  5'- uUGAGGGCCGGGaaGGGcuuGGaCCC-Ca -3'
miRNA:   3'- cACUUUCGGCCCgaCCCu--CC-GGGaGa -5'
27231 3' -61 NC_005832.1 + 39446 0.66 0.543917
Target:  5'- cGUGGGagcGGCUGGGCcucagGGGcagaggggaaucagGGGUCCUCa -3'
miRNA:   3'- -CACUU---UCGGCCCGa----CCC--------------UCCGGGAGa -5'
27231 3' -61 NC_005832.1 + 43142 0.66 0.540922
Target:  5'- -gGGAGGCCGugcuggccaccgucaGGCUGGGAaagGGCCUg-- -3'
miRNA:   3'- caCUUUCGGC---------------CCGACCCU---CCGGGaga -5'
27231 3' -61 NC_005832.1 + 3948 0.67 0.527022
Target:  5'- cGUGcgu-CCuGGUUGGGAuGGCCCUCa -3'
miRNA:   3'- -CACuuucGGcCCGACCCU-CCGGGAGa -5'
27231 3' -61 NC_005832.1 + 8230 0.67 0.517176
Target:  5'- cGUGAGAGCCGGuacgGGGuacaugGGGCUCUUg -3'
miRNA:   3'- -CACUUUCGGCCcga-CCC------UCCGGGAGa -5'
27231 3' -61 NC_005832.1 + 55743 0.67 0.507404
Target:  5'- uGUGGGAGCgGgaguGGCUGGGGcGGCgcugaccgCCUCUg -3'
miRNA:   3'- -CACUUUCGgC----CCGACCCU-CCG--------GGAGA- -5'
27231 3' -61 NC_005832.1 + 61926 0.67 0.507404
Target:  5'- -aGGAGGCCguuuGGGUUGuGGuGGCCgUCg -3'
miRNA:   3'- caCUUUCGG----CCCGAC-CCuCCGGgAGa -5'
27231 3' -61 NC_005832.1 + 65883 0.67 0.48906
Target:  5'- gGUGAugcccacguccgccAGGUCGGGCcuggacauggauaucUGGaGGGCCCUCa -3'
miRNA:   3'- -CACU--------------UUCGGCCCG---------------ACCcUCCGGGAGa -5'
27231 3' -61 NC_005832.1 + 67904 0.67 0.488103
Target:  5'- -gGAGGGCCGGGgucuCUGGG-GGaaaaCCUCc -3'
miRNA:   3'- caCUUUCGGCCC----GACCCuCCg---GGAGa -5'
27231 3' -61 NC_005832.1 + 43324 0.68 0.469154
Target:  5'- -cGccAGCCuGGC-GGGAGcGCCCUCa -3'
miRNA:   3'- caCuuUCGGcCCGaCCCUC-CGGGAGa -5'
27231 3' -61 NC_005832.1 + 70863 0.68 0.459821
Target:  5'- cUGGcuauAGCCGcGGCUGcGGcGGCCuCUCUg -3'
miRNA:   3'- cACUu---UCGGC-CCGAC-CCuCCGG-GAGA- -5'
27231 3' -61 NC_005832.1 + 29634 0.68 0.458893
Target:  5'- -gGGAGGCUauauccaGGGgaGGGAcGGCUCUCUc -3'
miRNA:   3'- caCUUUCGG-------CCCgaCCCU-CCGGGAGA- -5'
27231 3' -61 NC_005832.1 + 102076 0.68 0.450588
Target:  5'- uUGGccuuGGCCaGGGuCUGGGcGGuCCCUCUa -3'
miRNA:   3'- cACUu---UCGG-CCC-GACCCuCC-GGGAGA- -5'
27231 3' -61 NC_005832.1 + 64128 0.71 0.297037
Target:  5'- -aGGGAGCCGGGUaucaGGGCCCUCa -3'
miRNA:   3'- caCUUUCGGCCCGacccUCCGGGAGa -5'
27231 3' -61 NC_005832.1 + 75644 0.77 0.121085
Target:  5'- uUGAGGGCCGGGU--GGAGGCCC-CUg -3'
miRNA:   3'- cACUUUCGGCCCGacCCUCCGGGaGA- -5'
27231 3' -61 NC_005832.1 + 94192 1.07 0.000826
Target:  5'- cGUGAAAGCCGGGCUGGGAGGCCCUCUu -3'
miRNA:   3'- -CACUUUCGGCCCGACCCUCCGGGAGA- -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.