miRNA display CGI


Results 1 - 20 of 52 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
1464 3' -55.4 NC_001335.1 + 13199 1.11 0.000767
Target:  5'- gGACCAGGCCGUCGAAUACCGGCAUCCc -3'
miRNA:   3'- -CUGGUCCGGCAGCUUAUGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 36243 0.78 0.14866
Target:  5'- aGACUcGGCCGUCGAccgagaACCGGCcUCCg -3'
miRNA:   3'- -CUGGuCCGGCAGCUua----UGGCCGuAGG- -5'
1464 3' -55.4 NC_001335.1 + 36742 0.77 0.179447
Target:  5'- aACCGGGCCGUCGuagACCuGGCGcagcggcUCCa -3'
miRNA:   3'- cUGGUCCGGCAGCuuaUGG-CCGU-------AGG- -5'
1464 3' -55.4 NC_001335.1 + 8621 0.76 0.19504
Target:  5'- cGCCAGGCCGUCGAGgguuuccGCCucGGCGaugCCg -3'
miRNA:   3'- cUGGUCCGGCAGCUUa------UGG--CCGUa--GG- -5'
1464 3' -55.4 NC_001335.1 + 45258 0.76 0.200318
Target:  5'- cGCCAGGUgGUCGAGUucgaGCUGGCAagggCCg -3'
miRNA:   3'- cUGGUCCGgCAGCUUA----UGGCCGUa---GG- -5'
1464 3' -55.4 NC_001335.1 + 7579 0.75 0.228598
Target:  5'- aGACCGGGgUGUCG---GCCGGCGcuUCCa -3'
miRNA:   3'- -CUGGUCCgGCAGCuuaUGGCCGU--AGG- -5'
1464 3' -55.4 NC_001335.1 + 22397 0.75 0.247139
Target:  5'- aGACCGcaGCC-UCGAAugcagcUACCGGCAUCCa -3'
miRNA:   3'- -CUGGUc-CGGcAGCUU------AUGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 29438 0.74 0.295231
Target:  5'- gGACCucGCgcaUGUCGAucACCGGCAUCCc -3'
miRNA:   3'- -CUGGucCG---GCAGCUuaUGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 47002 0.73 0.310247
Target:  5'- cGCCAGGCCGaaGAcgugGCCGGUAcgCCg -3'
miRNA:   3'- cUGGUCCGGCagCUua--UGGCCGUa-GG- -5'
1464 3' -55.4 NC_001335.1 + 25969 0.73 0.325838
Target:  5'- -gUCAGGCCGUCGAccACCaagGGCA-CCa -3'
miRNA:   3'- cuGGUCCGGCAGCUuaUGG---CCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 612 0.72 0.342003
Target:  5'- -uCCAGGCCG-CGAGauagGCCGGCAc-- -3'
miRNA:   3'- cuGGUCCGGCaGCUUa---UGGCCGUagg -5'
1464 3' -55.4 NC_001335.1 + 7954 0.72 0.3503
Target:  5'- --gCAGGCCGUCGcugACaCGGCAgCCg -3'
miRNA:   3'- cugGUCCGGCAGCuuaUG-GCCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 31740 0.71 0.393895
Target:  5'- cACgAGGCCG-CGGAUGCCGaG-AUCCg -3'
miRNA:   3'- cUGgUCCGGCaGCUUAUGGC-CgUAGG- -5'
1464 3' -55.4 NC_001335.1 + 35151 0.71 0.412291
Target:  5'- gGugCAGGCCcgGUCGAGUA-CGGgGUCUc -3'
miRNA:   3'- -CugGUCCGG--CAGCUUAUgGCCgUAGG- -5'
1464 3' -55.4 NC_001335.1 + 6238 0.71 0.412291
Target:  5'- cACCAGGUCGcugccUCGGAcacgAUgGGCAUCCu -3'
miRNA:   3'- cUGGUCCGGC-----AGCUUa---UGgCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 38900 0.71 0.420741
Target:  5'- --aCGGGCCaUCGAGUaccugcugaacccGCCGGcCGUCCa -3'
miRNA:   3'- cugGUCCGGcAGCUUA-------------UGGCC-GUAGG- -5'
1464 3' -55.4 NC_001335.1 + 20326 0.71 0.421686
Target:  5'- cGACCuGGCCGUC----GCCGGCcaguuggaccAUCCc -3'
miRNA:   3'- -CUGGuCCGGCAGcuuaUGGCCG----------UAGG- -5'
1464 3' -55.4 NC_001335.1 + 46506 0.71 0.430251
Target:  5'- uGACCgccgaggagaacaAGGCCGUgGAAUcgGCCGGCGg-- -3'
miRNA:   3'- -CUGG-------------UCCGGCAgCUUA--UGGCCGUagg -5'
1464 3' -55.4 NC_001335.1 + 5958 0.7 0.450624
Target:  5'- aGACCAGGCCcgagCGggUcggGCUGGCcugugCCg -3'
miRNA:   3'- -CUGGUCCGGca--GCuuA---UGGCCGua---GG- -5'
1464 3' -55.4 NC_001335.1 + 42336 0.7 0.450624
Target:  5'- cGACCAGaUCGUCGcAAUcucgACCGGCAcgauUCCu -3'
miRNA:   3'- -CUGGUCcGGCAGC-UUA----UGGCCGU----AGG- -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.