miRNA display CGI


Results 1 - 15 of 15 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
18227 3' -57.2 NC_004680.1 + 52198 0.67 0.553296
Target:  5'- gCGCCGgcaaGCCGacGAGCCaggaGGCGGAUa -3'
miRNA:   3'- -GUGGUag--CGGU--CUCGGaa--CCGCCUAc -5'
18227 3' -57.2 NC_004680.1 + 12358 0.67 0.553296
Target:  5'- aCACCAaCaCCAGcGCCUUgGGCGGGc- -3'
miRNA:   3'- -GUGGUaGcGGUCuCGGAA-CCGCCUac -5'
18227 3' -57.2 NC_004680.1 + 32760 0.67 0.542651
Target:  5'- cCACCGagggcauaaaGCguGGGUgUUGGCGGGUGg -3'
miRNA:   3'- -GUGGUag--------CGguCUCGgAACCGCCUAC- -5'
18227 3' -57.2 NC_004680.1 + 39534 0.67 0.532074
Target:  5'- uUugCAUCGCCGGgcGGCU---GCGGGUGa -3'
miRNA:   3'- -GugGUAGCGGUC--UCGGaacCGCCUAC- -5'
18227 3' -57.2 NC_004680.1 + 55871 0.67 0.532074
Target:  5'- gGCCAUCGCgAGgguggcGGCUUUGGCGa--- -3'
miRNA:   3'- gUGGUAGCGgUC------UCGGAACCGCcuac -5'
18227 3' -57.2 NC_004680.1 + 34581 0.68 0.511152
Target:  5'- uGCCGUCGCCGGGGa--UGGUGcGGUa -3'
miRNA:   3'- gUGGUAGCGGUCUCggaACCGC-CUAc -5'
18227 3' -57.2 NC_004680.1 + 42735 0.68 0.500819
Target:  5'- gCGCCGUCGUC-GAGCa--GGCGGGc- -3'
miRNA:   3'- -GUGGUAGCGGuCUCGgaaCCGCCUac -5'
18227 3' -57.2 NC_004680.1 + 53246 0.68 0.500819
Target:  5'- aCGCCcgauauUCGUCAGGGUCUUGGaUGGGg- -3'
miRNA:   3'- -GUGGu-----AGCGGUCUCGGAACC-GCCUac -5'
18227 3' -57.2 NC_004680.1 + 14438 0.68 0.497737
Target:  5'- cCGCCGUCGCCgcaGGAGCUgaacaucuuccaacaGGCGG-UGa -3'
miRNA:   3'- -GUGGUAGCGG---UCUCGGaa-------------CCGCCuAC- -5'
18227 3' -57.2 NC_004680.1 + 31933 0.69 0.44095
Target:  5'- uGCCugucUCaGCCGGGGUCggugUGGCGGAg- -3'
miRNA:   3'- gUGGu---AG-CGGUCUCGGa---ACCGCCUac -5'
18227 3' -57.2 NC_004680.1 + 34273 0.69 0.431368
Target:  5'- uCACCAUcccCGgCAGGGCgCUuuuuugcguucUGGCGGGUGu -3'
miRNA:   3'- -GUGGUA---GCgGUCUCG-GA-----------ACCGCCUAC- -5'
18227 3' -57.2 NC_004680.1 + 49155 0.7 0.359352
Target:  5'- cCugCAUCGUCAcAGCCUcGGUGGGUu -3'
miRNA:   3'- -GugGUAGCGGUcUCGGAaCCGCCUAc -5'
18227 3' -57.2 NC_004680.1 + 11058 0.72 0.279677
Target:  5'- cCGCCGUCgauggcauccugcuGCCGGgcGGCCUUGGUGGcgGc -3'
miRNA:   3'- -GUGGUAG--------------CGGUC--UCGGAACCGCCuaC- -5'
18227 3' -57.2 NC_004680.1 + 21213 0.73 0.248262
Target:  5'- gGCCGgugcCGCCGGAGCC--GGUGGAUa -3'
miRNA:   3'- gUGGUa---GCGGUCUCGGaaCCGCCUAc -5'
18227 3' -57.2 NC_004680.1 + 48953 1.09 0.000672
Target:  5'- aCACCAUCGCCAGAGCCUUGGCGGAUGa -3'
miRNA:   3'- -GUGGUAGCGGUCUCGGAACCGCCUAC- -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.