miRNA display CGI


Results 1 - 20 of 62 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
23869 3' -56.2 NC_005262.1 + 41652 0.82 0.088158
Target:  5'- gUCAGGUUGUuuccggCGGCGCCGuCAUCGCCGc -3'
miRNA:   3'- -AGUCUAACA------GCCGCGGCcGUAGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 52327 0.67 0.652201
Target:  5'- cCGGAacaa-GGCGCCGGacgcgUAUCGCCGg -3'
miRNA:   3'- aGUCUaacagCCGCGGCC-----GUAGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 57515 0.67 0.673726
Target:  5'- uUCAGc--GUC-GCGCCGGgCAUCgACCGc -3'
miRNA:   3'- -AGUCuaaCAGcCGCGGCC-GUAG-UGGC- -5'
23869 3' -56.2 NC_005262.1 + 5157 0.66 0.684437
Target:  5'- cUCGGcgcgcUGaUCGGUgacgGCCGGCGUCGCgGg -3'
miRNA:   3'- -AGUCua---AC-AGCCG----CGGCCGUAGUGgC- -5'
23869 3' -56.2 NC_005262.1 + 2641 0.66 0.6951
Target:  5'- cCAGAUcggcccaugccUGcgCGGCGCCgggcGGCGUCcugGCCGc -3'
miRNA:   3'- aGUCUA-----------ACa-GCCGCGG----CCGUAG---UGGC- -5'
23869 3' -56.2 NC_005262.1 + 5310 0.66 0.716239
Target:  5'- -gAGGcgGUCGGagcugGCCGGCAggagcuucgCACCGc -3'
miRNA:   3'- agUCUaaCAGCCg----CGGCCGUa--------GUGGC- -5'
23869 3' -56.2 NC_005262.1 + 56719 0.66 0.725652
Target:  5'- -aGGAcgUGUCcgaGGCGUCGGCGUUcgacaugGCCGc -3'
miRNA:   3'- agUCUa-ACAG---CCGCGGCCGUAG-------UGGC- -5'
23869 3' -56.2 NC_005262.1 + 10975 0.66 0.737058
Target:  5'- -----cUGUCGGCgcGCCGGgAaCGCCGg -3'
miRNA:   3'- agucuaACAGCCG--CGGCCgUaGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 12946 0.66 0.737058
Target:  5'- -aAGGg---CGuGCGCgaCGGCAUCGCCGa -3'
miRNA:   3'- agUCUaacaGC-CGCG--GCCGUAGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 46540 0.67 0.630604
Target:  5'- cCAGcg---CGGCGCCGGC--CGCCGc -3'
miRNA:   3'- aGUCuaacaGCCGCGGCCGuaGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 49844 0.67 0.619803
Target:  5'- --cGAaUGgccCGGUGCCGGCGgcggUACCGg -3'
miRNA:   3'- aguCUaACa--GCCGCGGCCGUa---GUGGC- -5'
23869 3' -56.2 NC_005262.1 + 32856 0.67 0.619803
Target:  5'- uUCGGcccgcacgUG-CGGCGCCGaGCuguUCGCCGc -3'
miRNA:   3'- -AGUCua------ACaGCCGCGGC-CGu--AGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 11640 0.76 0.215912
Target:  5'- aUCGGcucggCGGCGCCGGCGUCGCg- -3'
miRNA:   3'- -AGUCuaacaGCCGCGGCCGUAGUGgc -5'
23869 3' -56.2 NC_005262.1 + 41410 0.75 0.258252
Target:  5'- ------cGUCGGCGCCGGCAccucguaugCGCCGa -3'
miRNA:   3'- agucuaaCAGCCGCGGCCGUa--------GUGGC- -5'
23869 3' -56.2 NC_005262.1 + 53447 0.73 0.338113
Target:  5'- cCAGAagcgCGGCGCCGGCGUCGaggacaaCGg -3'
miRNA:   3'- aGUCUaacaGCCGCGGCCGUAGUg------GC- -5'
23869 3' -56.2 NC_005262.1 + 23827 0.69 0.554455
Target:  5'- gCAGGUacUCGGCaacguagGCCGGCA-CGCCGc -3'
miRNA:   3'- aGUCUAacAGCCG-------CGGCCGUaGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 27141 0.68 0.565062
Target:  5'- --cGAUccgUGUCugguacuGGUGCCGGCA-CACCGg -3'
miRNA:   3'- aguCUA---ACAG-------CCGCGGCCGUaGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 40982 0.68 0.598241
Target:  5'- gUCGGGUUucUGGCGgCGGCGcUCGCUGc -3'
miRNA:   3'- -AGUCUAAcaGCCGCgGCCGU-AGUGGC- -5'
23869 3' -56.2 NC_005262.1 + 45450 0.68 0.598241
Target:  5'- cUCGGAaccaucGcCGGCGCgGGCAUCAUgGc -3'
miRNA:   3'- -AGUCUaa----CaGCCGCGgCCGUAGUGgC- -5'
23869 3' -56.2 NC_005262.1 + 47923 0.68 0.613327
Target:  5'- gCAGAc-GcCGaGCGCCGGCGacaucgaagauuuguUCACCGa -3'
miRNA:   3'- aGUCUaaCaGC-CGCGGCCGU---------------AGUGGC- -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.