miRNA display CGI


Results 1 - 16 of 16 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
31887 3' -52.8 NC_006938.1 + 37918 0.66 0.847767
Target:  5'- gGGCggCGAGcgGGCGGUGGCcagGGCGguggagGCGu -3'
miRNA:   3'- aCCGa-GUUC--UUGCCACCG---UCGUa-----UGU- -5'
31887 3' -52.8 NC_006938.1 + 45669 0.66 0.83888
Target:  5'- aGGC-CGAGAACGGcUGG-AGCGgACu -3'
miRNA:   3'- aCCGaGUUCUUGCC-ACCgUCGUaUGu -5'
31887 3' -52.8 NC_006938.1 + 32844 0.66 0.836169
Target:  5'- gUGGCUCGAGGGCagcugggacaucguGGccGGUGGCAUGu- -3'
miRNA:   3'- -ACCGAGUUCUUG--------------CCa-CCGUCGUAUgu -5'
31887 3' -52.8 NC_006938.1 + 28951 0.66 0.820433
Target:  5'- aGGCUCGAGGcCGcUGGCcugGGCGggACAg -3'
miRNA:   3'- aCCGAGUUCUuGCcACCG---UCGUa-UGU- -5'
31887 3' -52.8 NC_006938.1 + 15468 0.67 0.770889
Target:  5'- cUGGCcucgacCAGGAGCGGgcugacgcgGGCGGCAaggACGu -3'
miRNA:   3'- -ACCGa-----GUUCUUGCCa--------CCGUCGUa--UGU- -5'
31887 3' -52.8 NC_006938.1 + 59598 0.67 0.760483
Target:  5'- cGGCaagcaccuUCAAcGGCGGUGGCAuCGUGCu -3'
miRNA:   3'- aCCG--------AGUUcUUGCCACCGUcGUAUGu -5'
31887 3' -52.8 NC_006938.1 + 44257 0.67 0.760483
Target:  5'- aGGCccucuUCAAGGGaGGUGGCGGUggGCu -3'
miRNA:   3'- aCCG-----AGUUCUUgCCACCGUCGuaUGu -5'
31887 3' -52.8 NC_006938.1 + 9587 0.68 0.739272
Target:  5'- gGGCUgcucgccgCAGGGAuUGGUGGCGGCGa--- -3'
miRNA:   3'- aCCGA--------GUUCUU-GCCACCGUCGUaugu -5'
31887 3' -52.8 NC_006938.1 + 52302 0.68 0.72849
Target:  5'- cGGCUCGAuccucaucGGCGGccagGGCGGCAUcgACAa -3'
miRNA:   3'- aCCGAGUUc-------UUGCCa---CCGUCGUA--UGU- -5'
31887 3' -52.8 NC_006938.1 + 52185 0.68 0.706637
Target:  5'- aGGCgguGGAgGCGGUGGUGGCAUcuucgGCGg -3'
miRNA:   3'- aCCGaguUCU-UGCCACCGUCGUA-----UGU- -5'
31887 3' -52.8 NC_006938.1 + 11066 0.7 0.639627
Target:  5'- aUGGCUCcccAGAcccggccgAUGuGUGGCAGCAagUGCAg -3'
miRNA:   3'- -ACCGAGu--UCU--------UGC-CACCGUCGU--AUGU- -5'
31887 3' -52.8 NC_006938.1 + 51110 0.7 0.639627
Target:  5'- cGGCg-GAGGcccCGGUGGCAGCGUcgaACGc -3'
miRNA:   3'- aCCGagUUCUu--GCCACCGUCGUA---UGU- -5'
31887 3' -52.8 NC_006938.1 + 63509 0.7 0.627242
Target:  5'- cUGGCgcacguUCAAGGACGGaccgcacUGGCAGC-UGCc -3'
miRNA:   3'- -ACCG------AGUUCUUGCC-------ACCGUCGuAUGu -5'
31887 3' -52.8 NC_006938.1 + 11263 0.7 0.605872
Target:  5'- cGGCgUCGAGGA-GGaUGGCGGCGgugGCGa -3'
miRNA:   3'- aCCG-AGUUCUUgCC-ACCGUCGUa--UGU- -5'
31887 3' -52.8 NC_006938.1 + 56758 0.74 0.38714
Target:  5'- cUGGUUCGucgcccAGucagGCGGUGGCAGCAUGa- -3'
miRNA:   3'- -ACCGAGU------UCu---UGCCACCGUCGUAUgu -5'
31887 3' -52.8 NC_006938.1 + 49552 1.09 0.0017
Target:  5'- cUGGCUCAAGAACGGUGGCAGCAUACAg -3'
miRNA:   3'- -ACCGAGUUCUUGCCACCGUCGUAUGU- -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.