miRNA display CGI


Results 1 - 20 of 28 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
12008 3' -55.1 NC_003278.1 + 27967 0.66 0.613972
Target:  5'- gAGCUCAa-GGCCgACGuGCUGcgcCGCCu -3'
miRNA:   3'- -UCGAGUagUCGGgUGC-UGACua-GCGG- -5'
12008 3' -55.1 NC_003278.1 + 9845 0.66 0.613972
Target:  5'- gAGCgUAUCGGCcuggCCugGGCcGAgugCGCCg -3'
miRNA:   3'- -UCGaGUAGUCG----GGugCUGaCUa--GCGG- -5'
12008 3' -55.1 NC_003278.1 + 27783 0.66 0.613972
Target:  5'- uGGCUgGUCAGCCagUACGAagc--CGCCa -3'
miRNA:   3'- -UCGAgUAGUCGG--GUGCUgacuaGCGG- -5'
12008 3' -55.1 NC_003278.1 + 8301 0.66 0.602596
Target:  5'- cGCUgA-CAuGCUCAUGACugccguuccguUGAUCGCCg -3'
miRNA:   3'- uCGAgUaGU-CGGGUGCUG-----------ACUAGCGG- -5'
12008 3' -55.1 NC_003278.1 + 22438 0.66 0.579934
Target:  5'- cGGCUCA-CGGUCgACGGCaacGAcaUCGCCn -3'
miRNA:   3'- -UCGAGUaGUCGGgUGCUGa--CU--AGCGG- -5'
12008 3' -55.1 NC_003278.1 + 5070 0.66 0.557456
Target:  5'- uGCUCAccCAGgUCGCGGCUgugcucggcGAUCGCUu -3'
miRNA:   3'- uCGAGUa-GUCgGGUGCUGA---------CUAGCGG- -5'
12008 3' -55.1 NC_003278.1 + 18991 0.66 0.557456
Target:  5'- cGGC-CGaccUCcuuGCCUGCGGCcaggUGAUCGCCg -3'
miRNA:   3'- -UCGaGU---AGu--CGGGUGCUG----ACUAGCGG- -5'
12008 3' -55.1 NC_003278.1 + 30090 0.67 0.535235
Target:  5'- uGCUCgagGUCAGCCacuuccuGCUGAUgGCCa -3'
miRNA:   3'- uCGAG---UAGUCGGgugc---UGACUAgCGG- -5'
12008 3' -55.1 NC_003278.1 + 7280 0.67 0.535235
Target:  5'- aGGC-CcgCAGCUCGCGguugacGCUGAUCaCCg -3'
miRNA:   3'- -UCGaGuaGUCGGGUGC------UGACUAGcGG- -5'
12008 3' -55.1 NC_003278.1 + 21354 0.67 0.52424
Target:  5'- cGUUCAccaGGCCCugGACgaucauGUUGCCg -3'
miRNA:   3'- uCGAGUag-UCGGGugCUGac----UAGCGG- -5'
12008 3' -55.1 NC_003278.1 + 2631 0.67 0.513333
Target:  5'- uAGC-CAUCAGCgCCugGGCcaGGUCGguCCa -3'
miRNA:   3'- -UCGaGUAGUCG-GGugCUGa-CUAGC--GG- -5'
12008 3' -55.1 NC_003278.1 + 11950 0.67 0.513333
Target:  5'- uGCUCuUCAGCCCAUccgGGCaGAcCGCa -3'
miRNA:   3'- uCGAGuAGUCGGGUG---CUGaCUaGCGg -5'
12008 3' -55.1 NC_003278.1 + 32362 0.67 0.513333
Target:  5'- cGGUgCAUCgGGCCgGCGGCgucGAuaUCGCCg -3'
miRNA:   3'- -UCGaGUAG-UCGGgUGCUGa--CU--AGCGG- -5'
12008 3' -55.1 NC_003278.1 + 27021 0.68 0.491807
Target:  5'- aAGCUCGUCuGCCC-CuGCUGccacaGCCg -3'
miRNA:   3'- -UCGAGUAGuCGGGuGcUGACuag--CGG- -5'
12008 3' -55.1 NC_003278.1 + 31893 0.68 0.460331
Target:  5'- uGUUCAUCAGCUCGCc-CUGcaaaggCGCCa -3'
miRNA:   3'- uCGAGUAGUCGGGUGcuGACua----GCGG- -5'
12008 3' -55.1 NC_003278.1 + 13261 0.68 0.439951
Target:  5'- cGCcgacCGUC-GCCC-CGucGCUGAUCGCCu -3'
miRNA:   3'- uCGa---GUAGuCGGGuGC--UGACUAGCGG- -5'
12008 3' -55.1 NC_003278.1 + 14213 0.69 0.429956
Target:  5'- uGCUCAUCGgugacGCCgGCGGCg---CGCCc -3'
miRNA:   3'- uCGAGUAGU-----CGGgUGCUGacuaGCGG- -5'
12008 3' -55.1 NC_003278.1 + 20969 0.69 0.420095
Target:  5'- uGUUgAUCGGCCCGCuGgUGAcCGCCc -3'
miRNA:   3'- uCGAgUAGUCGGGUGcUgACUaGCGG- -5'
12008 3' -55.1 NC_003278.1 + 19377 0.69 0.410372
Target:  5'- gAGCagGUCAGCaCCGCG-CUGGcCGCg -3'
miRNA:   3'- -UCGagUAGUCG-GGUGCuGACUaGCGg -5'
12008 3' -55.1 NC_003278.1 + 1681 0.69 0.391352
Target:  5'- cGGCUCAaucaagaacaUCAG-CCGCGAC-GAccacUCGCCg -3'
miRNA:   3'- -UCGAGU----------AGUCgGGUGCUGaCU----AGCGG- -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.