miRNA display CGI


Results 1 - 20 of 46 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
12834 3' -56.2 NC_003387.1 + 12978 0.69 0.448788
Target:  5'- -cCGGGCGGCCACcgACGAcgagcuuaaggcgUCGUcgggcaaGGUCGa -3'
miRNA:   3'- gaGCCCGUCGGUG--UGCU-------------AGUA-------CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 1604 0.66 0.651727
Target:  5'- gUCGcaCGGCCugGCGAUUucGGUCGg -3'
miRNA:   3'- gAGCccGUCGGugUGCUAGuaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 28612 0.66 0.629838
Target:  5'- -aCGGGCAcGUCGagguGCGcaucccugaGUCAUGGUCGg -3'
miRNA:   3'- gaGCCCGU-CGGUg---UGC---------UAGUACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 17050 0.67 0.618892
Target:  5'- -cCGGGCGucGUCgaggACGCGAUCGagugGGUCGa -3'
miRNA:   3'- gaGCCCGU--CGG----UGUGCUAGUa---CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 5215 0.67 0.586158
Target:  5'- cCUCGGGUA-CCGCACGAUgcUGcUCGa -3'
miRNA:   3'- -GAGCCCGUcGGUGUGCUAguACcAGC- -5'
12834 3' -56.2 NC_003387.1 + 6326 0.68 0.553764
Target:  5'- -cUGGGCGGCCAgGCGAUCGgcaagaaGcUCGa -3'
miRNA:   3'- gaGCCCGUCGGUgUGCUAGUa------CcAGC- -5'
12834 3' -56.2 NC_003387.1 + 35636 0.66 0.673544
Target:  5'- -cCGaGGCGGCCGgGCGggCAcUGGcCGa -3'
miRNA:   3'- gaGC-CCGUCGGUgUGCuaGU-ACCaGC- -5'
12834 3' -56.2 NC_003387.1 + 10227 0.66 0.645164
Target:  5'- gUCGGGCauccgcgacgcgaugAGCCGCGcCGAgcgcgggcUCAaGGUCGc -3'
miRNA:   3'- gAGCCCG---------------UCGGUGU-GCU--------AGUaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 48211 0.67 0.597043
Target:  5'- --gGcGGCGGCCgaggugacccGCACGAUCGUgucgcgcccGGUCGg -3'
miRNA:   3'- gagC-CCGUCGG----------UGUGCUAGUA---------CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 42010 0.68 0.54308
Target:  5'- gUgGGGCcGCCugGCcGUgAUGGUCGc -3'
miRNA:   3'- gAgCCCGuCGGugUGcUAgUACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 37145 0.69 0.480638
Target:  5'- gUUGGGCAcucGCUGgGCGGgcgCAUGGUCa -3'
miRNA:   3'- gAGCCCGU---CGGUgUGCUa--GUACCAGc -5'
12834 3' -56.2 NC_003387.1 + 42829 0.69 0.501093
Target:  5'- ---cGGCGGCgAgGCGAUCAUGG-CGg -3'
miRNA:   3'- gagcCCGUCGgUgUGCUAGUACCaGC- -5'
12834 3' -56.2 NC_003387.1 + 40918 0.66 0.640786
Target:  5'- gUCGGGCgguGGCCugAUGGaCGgcgagcUGGUCGc -3'
miRNA:   3'- gAGCCCG---UCGGugUGCUaGU------ACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 13561 0.66 0.66265
Target:  5'- -cUGGGCAGCCcgaucgacggGCAgGAcgUCGgcUGGUCGc -3'
miRNA:   3'- gaGCCCGUCGG----------UGUgCU--AGU--ACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 50958 0.67 0.586158
Target:  5'- gCUCGGGCGccagcgccGCCGC-CGGgcUCAUGcuGUCGa -3'
miRNA:   3'- -GAGCCCGU--------CGGUGuGCU--AGUAC--CAGC- -5'
12834 3' -56.2 NC_003387.1 + 48540 0.67 0.586158
Target:  5'- gUCGGGCGGCUgAUACGAgcCGUugcGGUCu -3'
miRNA:   3'- gAGCCCGUCGG-UGUGCUa-GUA---CCAGc -5'
12834 3' -56.2 NC_003387.1 + 46937 0.67 0.590508
Target:  5'- -gCGGGCGgcuuguucuggucacGCCAgGCGAUCAgcucGUCGg -3'
miRNA:   3'- gaGCCCGU---------------CGGUgUGCUAGUac--CAGC- -5'
12834 3' -56.2 NC_003387.1 + 36000 0.67 0.607957
Target:  5'- aCUCGGcGUcGUCGC-CGAUCAcgaGGUCGa -3'
miRNA:   3'- -GAGCC-CGuCGGUGuGCUAGUa--CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 26578 0.66 0.6844
Target:  5'- cCUCGGGgucaGGCCGCGCGAgc--GG-CGa -3'
miRNA:   3'- -GAGCCCg---UCGGUGUGCUaguaCCaGC- -5'
12834 3' -56.2 NC_003387.1 + 14271 0.66 0.651727
Target:  5'- -aCGGGCAGaaCACGCaGUCGUGGg-- -3'
miRNA:   3'- gaGCCCGUCg-GUGUGcUAGUACCagc -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.