miRNA display CGI


Results 1 - 20 of 27 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
23206 3' -58.5 NC_005259.1 + 43980 0.66 0.649012
Target:  5'- cCGAg---GGCGGUGC-CGAUGGACgCu -3'
miRNA:   3'- -GCUaccaCCGCCACGcGCUGUCUGgG- -5'
23206 3' -58.5 NC_005259.1 + 3101 0.66 0.632205
Target:  5'- gCGAUGaGcgGGCGGccauUGCGCGGCAccgugggcagcggacGGCaCCg -3'
miRNA:   3'- -GCUAC-Ca-CCGCC----ACGCGCUGU---------------CUG-GG- -5'
23206 3' -58.5 NC_005259.1 + 33879 0.66 0.616447
Target:  5'- ---cGGUGagcacacGCGGgaaccacccGCGCGACGGGCCg -3'
miRNA:   3'- gcuaCCAC-------CGCCa--------CGCGCUGUCUGGg -5'
23206 3' -58.5 NC_005259.1 + 10230 0.66 0.611199
Target:  5'- aGAUGGcgcucacugagcacGGCGGUGUGCuugaugaGCGGGCCg -3'
miRNA:   3'- gCUACCa-------------CCGCCACGCGc------UGUCUGGg -5'
23206 3' -58.5 NC_005259.1 + 66660 0.66 0.607004
Target:  5'- ---cGGUcGGCGGUGCuGCGAU--GCUCa -3'
miRNA:   3'- gcuaCCA-CCGCCACG-CGCUGucUGGG- -5'
23206 3' -58.5 NC_005259.1 + 19209 0.67 0.596531
Target:  5'- -cGUGGUG-CGGgcgGCGaCGugGGACaCCg -3'
miRNA:   3'- gcUACCACcGCCa--CGC-GCugUCUG-GG- -5'
23206 3' -58.5 NC_005259.1 + 35308 0.67 0.586085
Target:  5'- aGAUGaccgagGGCGGUGUGU-ACGcGACCCc -3'
miRNA:   3'- gCUACca----CCGCCACGCGcUGU-CUGGG- -5'
23206 3' -58.5 NC_005259.1 + 61594 0.67 0.575675
Target:  5'- gCGGUGGgccGGUGGggucgGCGgGgaacaGCAGACCg -3'
miRNA:   3'- -GCUACCa--CCGCCa----CGCgC-----UGUCUGGg -5'
23206 3' -58.5 NC_005259.1 + 4513 0.67 0.554988
Target:  5'- cCGGgaGUGGCGcUGCGCGGCAc-CCCg -3'
miRNA:   3'- -GCUacCACCGCcACGCGCUGUcuGGG- -5'
23206 3' -58.5 NC_005259.1 + 47945 0.68 0.514334
Target:  5'- cCGAUGacGGCGGUGC-CGAUGGccgccgcgccGCCCg -3'
miRNA:   3'- -GCUACcaCCGCCACGcGCUGUC----------UGGG- -5'
23206 3' -58.5 NC_005259.1 + 27383 0.68 0.514334
Target:  5'- aCGGUgaccGGcGGCGGUGUcggcagcgGCGGCAGcucgguGCCCg -3'
miRNA:   3'- -GCUA----CCaCCGCCACG--------CGCUGUC------UGGG- -5'
23206 3' -58.5 NC_005259.1 + 68693 0.68 0.504354
Target:  5'- uCGAUGaucgaGGCGGgcaGCGCGuCGGugCCc -3'
miRNA:   3'- -GCUACca---CCGCCa--CGCGCuGUCugGG- -5'
23206 3' -58.5 NC_005259.1 + 24297 0.69 0.474945
Target:  5'- gGAUGGUGcUGcUGCGCGAUcuACCCg -3'
miRNA:   3'- gCUACCACcGCcACGCGCUGucUGGG- -5'
23206 3' -58.5 NC_005259.1 + 26637 0.69 0.455821
Target:  5'- uCGAUGGccUGGC-GUGCGCucGGCAGguucggcgcACCCg -3'
miRNA:   3'- -GCUACC--ACCGcCACGCG--CUGUC---------UGGG- -5'
23206 3' -58.5 NC_005259.1 + 50505 0.69 0.455821
Target:  5'- uCGAUGuG-GGCGGUGCGCuGCAccucGACgCg -3'
miRNA:   3'- -GCUAC-CaCCGCCACGCGcUGU----CUGgG- -5'
23206 3' -58.5 NC_005259.1 + 46438 0.69 0.455821
Target:  5'- aCGAUGGUGGCaagcugcugcucGGUGagGCu-CAGAUCCu -3'
miRNA:   3'- -GCUACCACCG------------CCACg-CGcuGUCUGGG- -5'
23206 3' -58.5 NC_005259.1 + 6384 0.69 0.440825
Target:  5'- gCGAUGGUcaacgucauuuucgaGGCGGUGCcCuGAUGuGGCCCg -3'
miRNA:   3'- -GCUACCA---------------CCGCCACGcG-CUGU-CUGGG- -5'
23206 3' -58.5 NC_005259.1 + 41119 0.69 0.427937
Target:  5'- aCGAUGucGGCGGUGCccGCGucgcgcagccuCAGGCCCc -3'
miRNA:   3'- -GCUACcaCCGCCACG--CGCu----------GUCUGGG- -5'
23206 3' -58.5 NC_005259.1 + 31526 0.69 0.427937
Target:  5'- uGAUcGG-GGUGGUGcCGUGAUAGAUCg -3'
miRNA:   3'- gCUA-CCaCCGCCAC-GCGCUGUCUGGg -5'
23206 3' -58.5 NC_005259.1 + 15568 0.71 0.342778
Target:  5'- ---aGGUGGCcacccucgGGgccaGCGCGACGGGCCg -3'
miRNA:   3'- gcuaCCACCG--------CCa---CGCGCUGUCUGGg -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.