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
28357 3' -61.1 NC_005946.1 + 55370 0.66 0.61004
Target:  5'- aGGC-GCCCaaGACUucgGUCUugGCCGCuGCa -3'
miRNA:   3'- -CCGaCGGGg-CUGGa--CAGA--CGGCGuCG- -5'
28357 3' -61.1 NC_005946.1 + 39868 0.66 0.583794
Target:  5'- aGGCUcgucguucccGCUCUGAgaccgUCUGUCUagggcucuggcuaugGCCGCGGCu -3'
miRNA:   3'- -CCGA----------CGGGGCU-----GGACAGA---------------CGGCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 22411 0.66 0.579774
Target:  5'- gGGCUaGCCUccgCGGCC--UCUGCCGguGa -3'
miRNA:   3'- -CCGA-CGGG---GCUGGacAGACGGCguCg -5'
28357 3' -61.1 NC_005946.1 + 2662 0.66 0.559769
Target:  5'- cGGCcgGCCCCugcuacGCCgGgg-GCUGCAGCg -3'
miRNA:   3'- -CCGa-CGGGGc-----UGGaCagaCGGCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 81851 0.67 0.549837
Target:  5'- ---aGCCCCaacgaacugGaACCUGUCuUGCCcGCGGCg -3'
miRNA:   3'- ccgaCGGGG---------C-UGGACAG-ACGG-CGUCG- -5'
28357 3' -61.1 NC_005946.1 + 65236 0.67 0.538976
Target:  5'- ---gGCCCCGugaccguccacaaACCUGUCUagcuugaggGCCGCGGa -3'
miRNA:   3'- ccgaCGGGGC-------------UGGACAGA---------CGGCGUCg -5'
28357 3' -61.1 NC_005946.1 + 82869 0.67 0.536027
Target:  5'- cGCUGUCCaggguccccguggGACCUGUCcacggGUCGCAGa -3'
miRNA:   3'- cCGACGGGg------------CUGGACAGa----CGGCGUCg -5'
28357 3' -61.1 NC_005946.1 + 44708 0.67 0.520395
Target:  5'- uGGCUaggGCCCUGGuggcCCUGaCUGCUGCAc- -3'
miRNA:   3'- -CCGA---CGGGGCU----GGACaGACGGCGUcg -5'
28357 3' -61.1 NC_005946.1 + 57908 0.67 0.510716
Target:  5'- uGGCUGCCagGGcCCUGUUgGCCGgGGg -3'
miRNA:   3'- -CCGACGGggCU-GGACAGaCGGCgUCg -5'
28357 3' -61.1 NC_005946.1 + 68302 0.67 0.510716
Target:  5'- uGGCguagGCCCUaaagaUGUCUGCgGCGGUg -3'
miRNA:   3'- -CCGa---CGGGGcugg-ACAGACGgCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 2248 0.67 0.501113
Target:  5'- cGGCccacagggGCCCCGACCaGgacGCCGCccugGGCu -3'
miRNA:   3'- -CCGa-------CGGGGCUGGaCagaCGGCG----UCG- -5'
28357 3' -61.1 NC_005946.1 + 45080 0.68 0.472802
Target:  5'- uGGCacaggUGCCUCuGCCUcUCUGCCGCcuGCc -3'
miRNA:   3'- -CCG-----ACGGGGcUGGAcAGACGGCGu-CG- -5'
28357 3' -61.1 NC_005946.1 + 26252 0.7 0.375882
Target:  5'- gGGCU-CCCCGGacucuauCCUGUCUGCCaCcGCc -3'
miRNA:   3'- -CCGAcGGGGCU-------GGACAGACGGcGuCG- -5'
28357 3' -61.1 NC_005946.1 + 90953 0.7 0.36863
Target:  5'- -cCUGCCuCCGGC--GUCUGUgGCAGCa -3'
miRNA:   3'- ccGACGG-GGCUGgaCAGACGgCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 26395 0.72 0.287924
Target:  5'- aGGCUGCuCCUGGCCcaccUCgccaCCGCAGCg -3'
miRNA:   3'- -CCGACG-GGGCUGGac--AGac--GGCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 97869 0.75 0.173313
Target:  5'- uGGCUccGUCCUGGCCUGUg-GCCGgGGCg -3'
miRNA:   3'- -CCGA--CGGGGCUGGACAgaCGGCgUCG- -5'
28357 3' -61.1 NC_005946.1 + 22176 0.81 0.069768
Target:  5'- uGGCUGCCCUGGCCgcggccgcuccccUGaCcGCCGCAGCg -3'
miRNA:   3'- -CCGACGGGGCUGG-------------ACaGaCGGCGUCG- -5'
28357 3' -61.1 NC_005946.1 + 19607 1.13 0.0003
Target:  5'- cGGCUGCCCCGACCUGUCUGCCGCAGCg -3'
miRNA:   3'- -CCGACGGGGCUGGACAGACGGCGUCG- -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.