miRNA display CGI


Results 1 - 20 of 32 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
24669 3' -49.7 NC_005264.1 + 105289 1.13 0.006532
Target:  5'- cGAAAACCUUGGGGAUAUCAUGGCGCCu -3'
miRNA:   3'- -CUUUUGGAACCCCUAUAGUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 65096 0.78 0.65343
Target:  5'- gGAAGugCUUGGcGAUGUCGgacagcucuUGGCGCCu -3'
miRNA:   3'- -CUUUugGAACCcCUAUAGU---------ACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 113090 0.74 0.832693
Target:  5'- --uAGCCgcGGGGuuguGUGUCAUGGUGCUg -3'
miRNA:   3'- cuuUUGGaaCCCC----UAUAGUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 83424 0.74 0.841286
Target:  5'- uGAGAAUCgucaucccaUGGGcGAUuagCAUGGCGCCa -3'
miRNA:   3'- -CUUUUGGa--------ACCC-CUAua-GUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 61368 0.74 0.84967
Target:  5'- -uGAugCUUGGGGcggugAUUAUGGUGCUg -3'
miRNA:   3'- cuUUugGAACCCCua---UAGUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 147816 0.73 0.880248
Target:  5'- -uAGGCCUugucgucUGGGGAcuUCAUguuaGGCGCCg -3'
miRNA:   3'- cuUUUGGA-------ACCCCUauAGUA----CCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 129910 0.72 0.914684
Target:  5'- aGGGGCCgUGGGGAauUCccGGUGCCc -3'
miRNA:   3'- cUUUUGGaACCCCUauAGuaCCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 10884 0.72 0.914684
Target:  5'- aGGGGCCgUGGGGAauUCccGGUGCCc -3'
miRNA:   3'- cUUUUGGaACCCCUauAGuaCCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 128700 0.72 0.926369
Target:  5'- cGAGGCCUUGGGGGaggCGggcucGCGCCu -3'
miRNA:   3'- cUUUUGGAACCCCUauaGUac---CGCGG- -5'
24669 3' -49.7 NC_005264.1 + 9673 0.72 0.926369
Target:  5'- cGAGGCCUUGGGGGaggCGggcucGCGCCu -3'
miRNA:   3'- cUUUUGGAACCCCUauaGUac---CGCGG- -5'
24669 3' -49.7 NC_005264.1 + 154815 0.71 0.941944
Target:  5'- cAAGACCgugaccgUGGauguuuucucuGGAU-UCAUGGCGCCg -3'
miRNA:   3'- cUUUUGGa------ACC-----------CCUAuAGUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 4675 0.71 0.946617
Target:  5'- gGAAuACCUgcgucGGGGcgA--GUGGCGCCg -3'
miRNA:   3'- -CUUuUGGAa----CCCCuaUagUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 123702 0.71 0.946617
Target:  5'- gGAAuACCUgcgucGGGGcgA--GUGGCGCCg -3'
miRNA:   3'- -CUUuUGGAa----CCCCuaUagUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 93560 0.7 0.962801
Target:  5'- cAGAGuCCacaGGGGcGUAaaaUCAUGGCGCCg -3'
miRNA:   3'- cUUUU-GGaa-CCCC-UAU---AGUACCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 138197 0.7 0.962801
Target:  5'- cAGAACCgUGGGGAUuaagCAU-GCGCUg -3'
miRNA:   3'- cUUUUGGaACCCCUAua--GUAcCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 52201 0.7 0.966242
Target:  5'- uGAGGGCCgUGGGGcgcg-GUGGCGCg -3'
miRNA:   3'- -CUUUUGGaACCCCuauagUACCGCGg -5'
24669 3' -49.7 NC_005264.1 + 46250 0.7 0.972438
Target:  5'- aGAAGACCgcgccUGGGGGcGUUuaggGGuCGCCg -3'
miRNA:   3'- -CUUUUGGa----ACCCCUaUAGua--CC-GCGG- -5'
24669 3' -49.7 NC_005264.1 + 100074 0.7 0.972438
Target:  5'- cGGGGCCUaGGGcGUAgCAUGGCgGCCg -3'
miRNA:   3'- cUUUUGGAaCCCcUAUaGUACCG-CGG- -5'
24669 3' -49.7 NC_005264.1 + 36373 0.7 0.972438
Target:  5'- -uGGACCgcGGGGAgUAUCuccgcgcuaGGCGCCa -3'
miRNA:   3'- cuUUUGGaaCCCCU-AUAGua-------CCGCGG- -5'
24669 3' -49.7 NC_005264.1 + 136333 0.69 0.977769
Target:  5'- aAAGACCgcGGGGAgagaUAUUAUacgGGCGCUg -3'
miRNA:   3'- cUUUUGGaaCCCCU----AUAGUA---CCGCGG- -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.