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
18179 3' -60.3 NC_004680.1 + 9101 0.66 0.48309
Target:  5'- aGCGUCGCCGAU--UGGCaucaGgGCAGg -3'
miRNA:   3'- -UGCAGCGGCUAccACCGgg--CgUGUCa -5'
18179 3' -60.3 NC_004680.1 + 2148 0.66 0.444527
Target:  5'- cGCGUCG-UGAUGGUGcgcGUCCGCGCccgaaAGUg -3'
miRNA:   3'- -UGCAGCgGCUACCAC---CGGGCGUG-----UCA- -5'
18179 3' -60.3 NC_004680.1 + 18119 0.66 0.435158
Target:  5'- gGCG-CGCCGAUccgguugcaGGUGGUgCCGUACAu- -3'
miRNA:   3'- -UGCaGCGGCUA---------CCACCG-GGCGUGUca -5'
18179 3' -60.3 NC_004680.1 + 5670 0.66 0.435158
Target:  5'- aGCGUCGCCGGaaGU-GUCCGCGCuGg -3'
miRNA:   3'- -UGCAGCGGCUacCAcCGGGCGUGuCa -5'
18179 3' -60.3 NC_004680.1 + 13974 0.66 0.435158
Target:  5'- aACGccCGCUGcUGGUGGCuCCGCugauCGGg -3'
miRNA:   3'- -UGCa-GCGGCuACCACCG-GGCGu---GUCa -5'
18179 3' -60.3 NC_004680.1 + 5701 0.67 0.425904
Target:  5'- -gGUUcCCGAUGGU-GCCCGCccGCAGa -3'
miRNA:   3'- ugCAGcGGCUACCAcCGGGCG--UGUCa -5'
18179 3' -60.3 NC_004680.1 + 263 0.67 0.407752
Target:  5'- gGCGUCGCCGA---UGGCaCCGgaguaCACAGa -3'
miRNA:   3'- -UGCAGCGGCUaccACCG-GGC-----GUGUCa -5'
18179 3' -60.3 NC_004680.1 + 56666 0.67 0.39886
Target:  5'- gACGUCcCCGccacaucaGUGGCCCGC-CAGUa -3'
miRNA:   3'- -UGCAGcGGCuac-----CACCGGGCGuGUCA- -5'
18179 3' -60.3 NC_004680.1 + 12828 0.67 0.386621
Target:  5'- cGCGUUGCCGAaccUGGcUGGCCaggcuucccagcaGCGCAa- -3'
miRNA:   3'- -UGCAGCGGCU---ACC-ACCGGg------------CGUGUca -5'
18179 3' -60.3 NC_004680.1 + 28968 0.68 0.372941
Target:  5'- gACGcCGCCGAacgcGcGGCCCGCACGu- -3'
miRNA:   3'- -UGCaGCGGCUac--CaCCGGGCGUGUca -5'
18179 3' -60.3 NC_004680.1 + 21316 0.68 0.356309
Target:  5'- cACGguguUCG-CGGUGGUGGCgugggaCCGCGCGGg -3'
miRNA:   3'- -UGC----AGCgGCUACCACCG------GGCGUGUCa -5'
18179 3' -60.3 NC_004680.1 + 35761 0.68 0.356309
Target:  5'- aGCGUCGCCGAcc---GCCCGCuCAGg -3'
miRNA:   3'- -UGCAGCGGCUaccacCGGGCGuGUCa -5'
18179 3' -60.3 NC_004680.1 + 23245 0.68 0.34819
Target:  5'- uCGUCGCCGGuguUGGU-GCCCGUGgAGc -3'
miRNA:   3'- uGCAGCGGCU---ACCAcCGGGCGUgUCa -5'
18179 3' -60.3 NC_004680.1 + 25912 0.68 0.332353
Target:  5'- --cUCGCCG-UGGUGGCggCCGCcgccGCAGUg -3'
miRNA:   3'- ugcAGCGGCuACCACCG--GGCG----UGUCA- -5'
18179 3' -60.3 NC_004680.1 + 42325 0.69 0.324635
Target:  5'- uGCuUCGCagaaCGA-GGUGGCCCGCACuuugGGUg -3'
miRNA:   3'- -UGcAGCG----GCUaCCACCGGGCGUG----UCA- -5'
18179 3' -60.3 NC_004680.1 + 46125 0.72 0.182977
Target:  5'- gGCGUCGUCGGUGGUGGUgaauUCG-GCGGUg -3'
miRNA:   3'- -UGCAGCGGCUACCACCG----GGCgUGUCA- -5'
18179 3' -60.3 NC_004680.1 + 21431 0.76 0.096148
Target:  5'- uACGUgGCCGAcggGGcUGaGCCCGCGCGGUc -3'
miRNA:   3'- -UGCAgCGGCUa--CC-AC-CGGGCGUGUCA- -5'
18179 3' -60.3 NC_004680.1 + 15525 1.07 0.000514
Target:  5'- cACGUCGCCGAUGGUGGCCCGCACAGUg -3'
miRNA:   3'- -UGCAGCGGCUACCACCGGGCGUGUCA- -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.