miRNA display CGI


Results 1 - 20 of 59 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
14092 3' -49.8 NC_003521.1 + 53982 0.66 0.99966
Target:  5'- -cCGCCGCUGGGccgccauucgCAggACCGUCAGa -3'
miRNA:   3'- gaGUGGUGGUCCua--------GUuaUGGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 220866 0.66 0.99966
Target:  5'- aUCACCGCCAGcc-CGGccACCAUCAc -3'
miRNA:   3'- gAGUGGUGGUCcuaGUUa-UGGUAGUc -5'
14092 3' -49.8 NC_003521.1 + 18668 0.66 0.999575
Target:  5'- gCUgGCCACgGGGGcgcugCAggACCAUCAu -3'
miRNA:   3'- -GAgUGGUGgUCCUa----GUuaUGGUAGUc -5'
14092 3' -49.8 NC_003521.1 + 148149 0.66 0.999575
Target:  5'- gUCACCGCCAGGAaC---ACCAgcugCAu -3'
miRNA:   3'- gAGUGGUGGUCCUaGuuaUGGUa---GUc -5'
14092 3' -49.8 NC_003521.1 + 211742 0.66 0.999472
Target:  5'- -gCGCCACCAuGAgcUCGAUGCCcacCAGg -3'
miRNA:   3'- gaGUGGUGGUcCU--AGUUAUGGua-GUC- -5'
14092 3' -49.8 NC_003521.1 + 33871 0.66 0.999472
Target:  5'- -aCGCCA-CGGGcUCAucGCCGUCAGc -3'
miRNA:   3'- gaGUGGUgGUCCuAGUuaUGGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 186474 0.66 0.99946
Target:  5'- gCUCGCCAcgccccgaguggcCCAGGG-CGAgagccCCGUCGGg -3'
miRNA:   3'- -GAGUGGU-------------GGUCCUaGUUau---GGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 190594 0.66 0.9994
Target:  5'- uUCACCAgCCAGcGGUaacuccacacagccgCAGUAgCGUCAGg -3'
miRNA:   3'- gAGUGGU-GGUC-CUA---------------GUUAUgGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 174465 0.66 0.999348
Target:  5'- gCUCGCCGCCggccacgcgagcGGGAUcCAGUugCugcCAGg -3'
miRNA:   3'- -GAGUGGUGG------------UCCUA-GUUAugGua-GUC- -5'
14092 3' -49.8 NC_003521.1 + 101057 0.66 0.999348
Target:  5'- --gGCCGCCGacggccGGAUCc-UGCCGUCGGc -3'
miRNA:   3'- gagUGGUGGU------CCUAGuuAUGGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 180659 0.66 0.999348
Target:  5'- gCUCGCUACCGGGG-CGAcgacauCCAcCAGg -3'
miRNA:   3'- -GAGUGGUGGUCCUaGUUau----GGUaGUC- -5'
14092 3' -49.8 NC_003521.1 + 88663 0.66 0.999348
Target:  5'- --gGCCGCCAGG-UCGGUggGCCggCGGc -3'
miRNA:   3'- gagUGGUGGUCCuAGUUA--UGGuaGUC- -5'
14092 3' -49.8 NC_003521.1 + 226844 0.66 0.9992
Target:  5'- -cCGCCGCCGcgccGGG-CAGgcCCAUCAGg -3'
miRNA:   3'- gaGUGGUGGU----CCUaGUUauGGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 105591 0.66 0.9992
Target:  5'- gUCGCCGCCGccGGcgCA--GCCGcUCAGg -3'
miRNA:   3'- gAGUGGUGGU--CCuaGUuaUGGU-AGUC- -5'
14092 3' -49.8 NC_003521.1 + 78413 0.66 0.9992
Target:  5'- cCUCGCC-CaCGGGAUCAcagGUACCGa--- -3'
miRNA:   3'- -GAGUGGuG-GUCCUAGU---UAUGGUaguc -5'
14092 3' -49.8 NC_003521.1 + 72130 0.66 0.9992
Target:  5'- uUUGCCcuCCAGGAUUccguuGAUAuCCAUCAGc -3'
miRNA:   3'- gAGUGGu-GGUCCUAG-----UUAU-GGUAGUC- -5'
14092 3' -49.8 NC_003521.1 + 223698 0.66 0.9992
Target:  5'- -gCGCCGgCAGGAUCGAcgACCucgcCGGg -3'
miRNA:   3'- gaGUGGUgGUCCUAGUUa-UGGua--GUC- -5'
14092 3' -49.8 NC_003521.1 + 11213 0.66 0.9992
Target:  5'- aCUCACCugUAuc-UCAAUACCGUCu- -3'
miRNA:   3'- -GAGUGGugGUccuAGUUAUGGUAGuc -5'
14092 3' -49.8 NC_003521.1 + 134241 0.66 0.9992
Target:  5'- cCUCACCgACC-GGAUCG--ACUcgCAGa -3'
miRNA:   3'- -GAGUGG-UGGuCCUAGUuaUGGuaGUC- -5'
14092 3' -49.8 NC_003521.1 + 135332 0.67 0.998571
Target:  5'- -aCACCACUGGGAcgucgUCGAcagGCCGUaCAGu -3'
miRNA:   3'- gaGUGGUGGUCCU-----AGUUa--UGGUA-GUC- -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.