miRNA display CGI


Results 1 - 20 of 24 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
23071 3' -60.9 NC_005178.1 + 27728 0.66 0.353101
Target:  5'- -gAUUCGCgcaGCaGCGcCUGGACCUGGc -3'
miRNA:   3'- cgUGAGCGg--CGgCGC-GACCUGGACUc -5'
23071 3' -60.9 NC_005178.1 + 11881 0.66 0.353101
Target:  5'- aGCAgaUCGCCcagGCCGUGCgggaGGugCUGuGa -3'
miRNA:   3'- -CGUg-AGCGG---CGGCGCGa---CCugGACuC- -5'
23071 3' -60.9 NC_005178.1 + 31319 0.66 0.353101
Target:  5'- uGCGCcUGgCGCCGCGCcgGGAgUUcGAGg -3'
miRNA:   3'- -CGUGaGCgGCGGCGCGa-CCUgGA-CUC- -5'
23071 3' -60.9 NC_005178.1 + 16731 0.66 0.353101
Target:  5'- gGUcCUCGCauCGCUGCGCUGGcCCaggUGAu -3'
miRNA:   3'- -CGuGAGCG--GCGGCGCGACCuGG---ACUc -5'
23071 3' -60.9 NC_005178.1 + 22681 0.66 0.344826
Target:  5'- gGCGacCUCGCCcagGCCGaGCUGGAUCgccGGGu -3'
miRNA:   3'- -CGU--GAGCGG---CGGCgCGACCUGGa--CUC- -5'
23071 3' -60.9 NC_005178.1 + 28260 0.66 0.328697
Target:  5'- uCGCUgGCCGCCGCcaaUGGugUcagUGGGg -3'
miRNA:   3'- cGUGAgCGGCGGCGcg-ACCugG---ACUC- -5'
23071 3' -60.9 NC_005178.1 + 23662 0.66 0.328697
Target:  5'- cGCGCUgGCCcguucacgccggGCgGCGCUGG-CCUucGGGu -3'
miRNA:   3'- -CGUGAgCGG------------CGgCGCGACCuGGA--CUC- -5'
23071 3' -60.9 NC_005178.1 + 3652 0.66 0.320844
Target:  5'- aGCA-UCGCCGCCagGCGCggcaGGAcgcCCUGGu -3'
miRNA:   3'- -CGUgAGCGGCGG--CGCGa---CCU---GGACUc -5'
23071 3' -60.9 NC_005178.1 + 9568 0.66 0.313132
Target:  5'- aGCGCgaugcccugCGCCGCgcUGCGCUGGGCg---- -3'
miRNA:   3'- -CGUGa--------GCGGCG--GCGCGACCUGgacuc -5'
23071 3' -60.9 NC_005178.1 + 34654 0.66 0.313132
Target:  5'- gGCGugUUCGaCCGCCGCGCccguaGCCUGAa -3'
miRNA:   3'- -CGU--GAGC-GGCGGCGCGacc--UGGACUc -5'
23071 3' -60.9 NC_005178.1 + 7280 0.67 0.290844
Target:  5'- aGCACgcuGCCGCCGCcGCUGuACCg--- -3'
miRNA:   3'- -CGUGag-CGGCGGCG-CGACcUGGacuc -5'
23071 3' -60.9 NC_005178.1 + 10435 0.67 0.276687
Target:  5'- -gGCUCGCUGCCacaagGCGCUGGuacgguggcgcgAUCUGGa -3'
miRNA:   3'- cgUGAGCGGCGG-----CGCGACC------------UGGACUc -5'
23071 3' -60.9 NC_005178.1 + 21187 0.68 0.250033
Target:  5'- gGCGC-CGCCGCCcgacuCGCUGG-UCUGGc -3'
miRNA:   3'- -CGUGaGCGGCGGc----GCGACCuGGACUc -5'
23071 3' -60.9 NC_005178.1 + 31412 0.68 0.231461
Target:  5'- cGCGCguuugggCGCUGCCGauCUGG-CCUGAu -3'
miRNA:   3'- -CGUGa------GCGGCGGCgcGACCuGGACUc -5'
23071 3' -60.9 NC_005178.1 + 33176 0.68 0.231461
Target:  5'- uGCACUUcaaggGUCGCgGCGCUGcgcGACCgGAGu -3'
miRNA:   3'- -CGUGAG-----CGGCGgCGCGAC---CUGGaCUC- -5'
23071 3' -60.9 NC_005178.1 + 12653 0.69 0.214065
Target:  5'- -gGCUCggcgGCCGgCGCGCUGGcgggugGCCUGGu -3'
miRNA:   3'- cgUGAG----CGGCgGCGCGACC------UGGACUc -5'
23071 3' -60.9 NC_005178.1 + 35100 0.7 0.187571
Target:  5'- cUACUCGCCGCCGagcugcCGCUGGcgGCCg--- -3'
miRNA:   3'- cGUGAGCGGCGGC------GCGACC--UGGacuc -5'
23071 3' -60.9 NC_005178.1 + 11152 0.7 0.168496
Target:  5'- cGCcCUgGCCGCCGCcCUGGGcuuCCUGGu -3'
miRNA:   3'- -CGuGAgCGGCGGCGcGACCU---GGACUc -5'
23071 3' -60.9 NC_005178.1 + 19054 0.7 0.168496
Target:  5'- cGCGCcccuUCGCCGCuCGCGCUgcaacgguaacgGGGCucaaCUGAGg -3'
miRNA:   3'- -CGUG----AGCGGCG-GCGCGA------------CCUG----GACUC- -5'
23071 3' -60.9 NC_005178.1 + 16964 0.7 0.165789
Target:  5'- cCACUCGCCGCCGUugaggcgagaggucaGCgccGcGACCUGGc -3'
miRNA:   3'- cGUGAGCGGCGGCG---------------CGa--C-CUGGACUc -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.