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
18214 3' -55.2 NC_004680.1 + 36257 0.66 0.760686
Target:  5'- cGAGCa-GACCAGcgguccucgccGCCCU-GCGGGCa -3'
miRNA:   3'- cCUUGaaCUGGUC-----------CGGGAuCGCCUGg -5'
18214 3' -55.2 NC_004680.1 + 10894 0.66 0.750487
Target:  5'- cGAACUUuccgauucagGACCA-GCCCgacGGCgaGGACCg -3'
miRNA:   3'- cCUUGAA----------CUGGUcCGGGa--UCG--CCUGG- -5'
18214 3' -55.2 NC_004680.1 + 54363 0.67 0.719228
Target:  5'- gGGAagaugauccACUUgccGACCGGGauCCCgauGUGGACCc -3'
miRNA:   3'- -CCU---------UGAA---CUGGUCC--GGGau-CGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 28791 0.67 0.708624
Target:  5'- cGAACUUGugCAGGCaCCgcuacCGGAg- -3'
miRNA:   3'- cCUUGAACugGUCCG-GGauc--GCCUgg -5'
18214 3' -55.2 NC_004680.1 + 12461 0.67 0.687207
Target:  5'- cGGAGCcgGACCcGGC---AGUGGACCc -3'
miRNA:   3'- -CCUUGaaCUGGuCCGggaUCGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 12971 0.67 0.665583
Target:  5'- uGGGCUgGACCuGGCCUUgGGCGGcgGCUu -3'
miRNA:   3'- cCUUGAaCUGGuCCGGGA-UCGCC--UGG- -5'
18214 3' -55.2 NC_004680.1 + 39976 0.68 0.632942
Target:  5'- cGGAugUUGAUUccGCUCUGgcGCGGAUCu -3'
miRNA:   3'- -CCUugAACUGGucCGGGAU--CGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 48943 0.68 0.611161
Target:  5'- cGAAuuCUUGacaccaucGCCAGaGCCUUGGCGGAUg -3'
miRNA:   3'- cCUU--GAAC--------UGGUC-CGGGAUCGCCUGg -5'
18214 3' -55.2 NC_004680.1 + 27375 0.69 0.599207
Target:  5'- uGGAaccACUUGGCgAGGUUCUcGGCGGcagcgucGCCg -3'
miRNA:   3'- -CCU---UGAACUGgUCCGGGA-UCGCC-------UGG- -5'
18214 3' -55.2 NC_004680.1 + 9982 0.69 0.557169
Target:  5'- aGAACUUGaACCGcaCCCUugAGgGGACCg -3'
miRNA:   3'- cCUUGAAC-UGGUccGGGA--UCgCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 12368 0.71 0.474139
Target:  5'- cGGGAUggGcacaccaacACCAGcGCCUUgGGCGGGCCa -3'
miRNA:   3'- -CCUUGaaC---------UGGUC-CGGGA-UCGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 45442 0.71 0.454335
Target:  5'- aGGACUUGGagaaGGGCacguuCUGGUGGACCg -3'
miRNA:   3'- cCUUGAACUgg--UCCGg----GAUCGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 56775 0.71 0.444603
Target:  5'- uGGGGC-UGugCucuuuGGCguaCUGGCGGGCCa -3'
miRNA:   3'- -CCUUGaACugGu----CCGg--GAUCGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 42633 0.71 0.444603
Target:  5'- uGAACaUGuCCuGGCCCaGGCGGcCCg -3'
miRNA:   3'- cCUUGaACuGGuCCGGGaUCGCCuGG- -5'
18214 3' -55.2 NC_004680.1 + 25894 0.73 0.37995
Target:  5'- aGGAGCUUauCCuGGCCgaacuggAGCGGGCCa -3'
miRNA:   3'- -CCUUGAAcuGGuCCGGga-----UCGCCUGG- -5'
18214 3' -55.2 NC_004680.1 + 40394 1.15 0.000467
Target:  5'- aGGAACUUGACCAGGCCCUAGCGGACCg -3'
miRNA:   3'- -CCUUGAACUGGUCCGGGAUCGCCUGG- -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.