miRNA display CGI


Results 1 - 20 of 26 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
2005 3' -57.7 NC_001347.2 + 40670 0.66 0.914964
Target:  5'- --gCCGGGgacgggggUUGCGcUGGgGCCGGGGCu -3'
miRNA:   3'- gaaGGUCU--------GACGC-ACCgCGGUUCCGc -5'
2005 3' -57.7 NC_001347.2 + 36680 0.66 0.914964
Target:  5'- --aCCGGGCUccggcGgGUGGCcugagcacGCCGAGGCc -3'
miRNA:   3'- gaaGGUCUGA-----CgCACCG--------CGGUUCCGc -5'
2005 3' -57.7 NC_001347.2 + 23876 0.66 0.909216
Target:  5'- gUUUgAGAUcGCGUGGU-CCGAGGCu -3'
miRNA:   3'- gAAGgUCUGaCGCACCGcGGUUCCGc -5'
2005 3' -57.7 NC_001347.2 + 56232 0.66 0.903248
Target:  5'- --aCCAGugUGCcgcacaaggccGUGGCGgUAGGGUa -3'
miRNA:   3'- gaaGGUCugACG-----------CACCGCgGUUCCGc -5'
2005 3' -57.7 NC_001347.2 + 187048 0.66 0.903248
Target:  5'- ---gCAGACcGCG-GGCGCagucCGGGGCGa -3'
miRNA:   3'- gaagGUCUGaCGCaCCGCG----GUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 228423 0.66 0.903248
Target:  5'- -aUCCGGA-UGCGUGGCaa-GAGGCc -3'
miRNA:   3'- gaAGGUCUgACGCACCGcggUUCCGc -5'
2005 3' -57.7 NC_001347.2 + 171700 0.66 0.897061
Target:  5'- aUUUgAGcguGCUGCGcgaguUGGUGaCCGAGGCGg -3'
miRNA:   3'- gAAGgUC---UGACGC-----ACCGC-GGUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 160723 0.66 0.897061
Target:  5'- -cUCCu-GCUGCGUgucgaugcgcuGGUGCCA-GGCGg -3'
miRNA:   3'- gaAGGucUGACGCA-----------CCGCGGUuCCGC- -5'
2005 3' -57.7 NC_001347.2 + 1891 0.66 0.89643
Target:  5'- --aCCAGcgucuguGCUGCGgcuggcUGGCGCUggGcGCGg -3'
miRNA:   3'- gaaGGUC-------UGACGC------ACCGCGGuuC-CGC- -5'
2005 3' -57.7 NC_001347.2 + 95679 0.67 0.877221
Target:  5'- aCUUCCAcuuGCUGC-UGGUGgaCGAGGCGc -3'
miRNA:   3'- -GAAGGUc--UGACGcACCGCg-GUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 197552 0.67 0.870193
Target:  5'- --gCguGGCcgGCGUGGCGgCCGAcGGCa -3'
miRNA:   3'- gaaGguCUGa-CGCACCGC-GGUU-CCGc -5'
2005 3' -57.7 NC_001347.2 + 138812 0.67 0.862966
Target:  5'- --gCCAGACcGCaGUGGUGgCCAcGGUGg -3'
miRNA:   3'- gaaGGUCUGaCG-CACCGC-GGUuCCGC- -5'
2005 3' -57.7 NC_001347.2 + 31132 0.67 0.855544
Target:  5'- -gUCCAGGCUGCccUGGuUGCCGcuGCGg -3'
miRNA:   3'- gaAGGUCUGACGc-ACC-GCGGUucCGC- -5'
2005 3' -57.7 NC_001347.2 + 139447 0.67 0.855544
Target:  5'- --aCCAcggugcGACUGCacGGCGgCGAGGCGg -3'
miRNA:   3'- gaaGGU------CUGACGcaCCGCgGUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 181735 0.67 0.847933
Target:  5'- -gUCCuGcgaccGCUGCGU-GCGCCGAcGGCGu -3'
miRNA:   3'- gaAGGuC-----UGACGCAcCGCGGUU-CCGC- -5'
2005 3' -57.7 NC_001347.2 + 185473 0.67 0.847933
Target:  5'- --gCCGGACgGCGUuguGGCGCgCAGGGg- -3'
miRNA:   3'- gaaGGUCUGaCGCA---CCGCG-GUUCCgc -5'
2005 3' -57.7 NC_001347.2 + 67194 0.68 0.832168
Target:  5'- ---gCGGACUGCGaGGagGCUGAGGCGc -3'
miRNA:   3'- gaagGUCUGACGCaCCg-CGGUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 159227 0.68 0.828932
Target:  5'- uUUCUAGAgcacugaggacguuCUGCGUaagcaccgugauaGGCGgCGAGGCGa -3'
miRNA:   3'- gAAGGUCU--------------GACGCA-------------CCGCgGUUCCGC- -5'
2005 3' -57.7 NC_001347.2 + 78349 0.68 0.80641
Target:  5'- -gUCCGGGCggacccgGCGUggugggacccggcGGCGCCGuGGUGg -3'
miRNA:   3'- gaAGGUCUGa------CGCA-------------CCGCGGUuCCGC- -5'
2005 3' -57.7 NC_001347.2 + 183306 0.7 0.715822
Target:  5'- -cUCCAGGgUGCGUGa-GCCcGGGCGu -3'
miRNA:   3'- gaAGGUCUgACGCACcgCGGuUCCGC- -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.