miRNA display CGI


Results 1 - 20 of 21 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
27324 3' -48.4 NC_005856.1 + 43321 0.66 0.996733
Target:  5'- gCCCGGGCAgcagguaaACUUGGAUuaaAGGCAguugguaaagGGGCg -3'
miRNA:   3'- -GGGCUUGU--------UGGACUUAc--UCUGU----------UCCG- -5'
27324 3' -48.4 NC_005856.1 + 73509 0.66 0.996131
Target:  5'- gCCaGGCGAUCUGGcgGAaGGCAaucgggAGGCg -3'
miRNA:   3'- gGGcUUGUUGGACUuaCU-CUGU------UCCG- -5'
27324 3' -48.4 NC_005856.1 + 79174 0.66 0.996066
Target:  5'- cCCCGAcgaaagaGCAgaucGCCUGGAUGc-GC-AGGCu -3'
miRNA:   3'- -GGGCU-------UGU----UGGACUUACucUGuUCCG- -5'
27324 3' -48.4 NC_005856.1 + 28226 0.66 0.995728
Target:  5'- cCCCGGcACAGCCUGAugaaacgguuagcgaAgcAGAUgcaGAGGCu -3'
miRNA:   3'- -GGGCU-UGUUGGACU---------------UacUCUG---UUCCG- -5'
27324 3' -48.4 NC_005856.1 + 76984 0.67 0.99413
Target:  5'- -gCGAACAACCucauaaaguuuuucaUGAGUcagggaauGGACAAGGCc -3'
miRNA:   3'- ggGCUUGUUGG---------------ACUUAc-------UCUGUUCCG- -5'
27324 3' -48.4 NC_005856.1 + 72679 0.67 0.992749
Target:  5'- gUCuuAUAACCUGGccugcgccuuuaGUGAGGCAGGGg -3'
miRNA:   3'- gGGcuUGUUGGACU------------UACUCUGUUCCg -5'
27324 3' -48.4 NC_005856.1 + 91556 0.67 0.992749
Target:  5'- gCuuGAACAggAUCUGGAcGAaGACGAGGa -3'
miRNA:   3'- -GggCUUGU--UGGACUUaCU-CUGUUCCg -5'
27324 3' -48.4 NC_005856.1 + 88929 0.68 0.981566
Target:  5'- aCCGAGCaAACCaUGGcaacaaAUGAGGCAuuGCa -3'
miRNA:   3'- gGGCUUG-UUGG-ACU------UACUCUGUucCG- -5'
27324 3' -48.4 NC_005856.1 + 77065 0.68 0.981566
Target:  5'- gCCGAACuaaaAGCCUcgcGggUGAGAgAagcccAGGCu -3'
miRNA:   3'- gGGCUUG----UUGGA---CuuACUCUgU-----UCCG- -5'
27324 3' -48.4 NC_005856.1 + 48200 0.68 0.981344
Target:  5'- aCCGGuuuugACAGCCUGAAUGuuagugcGGACAAccGCa -3'
miRNA:   3'- gGGCU-----UGUUGGACUUAC-------UCUGUUc-CG- -5'
27324 3' -48.4 NC_005856.1 + 71308 0.69 0.976739
Target:  5'- aCCCaGGCGugCUGAAUGucAGAUAuaaucGGCa -3'
miRNA:   3'- -GGGcUUGUugGACUUAC--UCUGUu----CCG- -5'
27324 3' -48.4 NC_005856.1 + 74105 0.69 0.975125
Target:  5'- aUCCGGugGcgcucccaaugugccGCCUGAAgcgucaGGACAAGGUg -3'
miRNA:   3'- -GGGCUugU---------------UGGACUUac----UCUGUUCCG- -5'
27324 3' -48.4 NC_005856.1 + 10629 0.7 0.960724
Target:  5'- uCCCGggUAACUggUGGAUuaucGAGACAAaacacaacguGGCg -3'
miRNA:   3'- -GGGCuuGUUGG--ACUUA----CUCUGUU----------CCG- -5'
27324 3' -48.4 NC_005856.1 + 71129 0.7 0.956782
Target:  5'- aCCUGGuucguuGCCUGAGcuaGGGGCAAGGUu -3'
miRNA:   3'- -GGGCUugu---UGGACUUa--CUCUGUUCCG- -5'
27324 3' -48.4 NC_005856.1 + 22839 0.7 0.956782
Target:  5'- -gCGGcAUAACCUGAAucUGAGGCAGcaccuGGCa -3'
miRNA:   3'- ggGCU-UGUUGGACUU--ACUCUGUU-----CCG- -5'
27324 3' -48.4 NC_005856.1 + 39771 0.7 0.948106
Target:  5'- uCCCgGGACuguCCUGGguaaaggcAUGGGGCGAGGg -3'
miRNA:   3'- -GGG-CUUGuu-GGACU--------UACUCUGUUCCg -5'
27324 3' -48.4 NC_005856.1 + 55258 0.71 0.92749
Target:  5'- uCCUGAGCAAauCCUGGAaGGGAaagAAGGUa -3'
miRNA:   3'- -GGGCUUGUU--GGACUUaCUCUg--UUCCG- -5'
27324 3' -48.4 NC_005856.1 + 66694 0.73 0.873077
Target:  5'- gCCC--GCGAUaCUGAAUGccuGACAAGGCg -3'
miRNA:   3'- -GGGcuUGUUG-GACUUACu--CUGUUCCG- -5'
27324 3' -48.4 NC_005856.1 + 39705 0.74 0.83971
Target:  5'- cCCCGccccauACGACCUGAucaucauAGGCAAGGUa -3'
miRNA:   3'- -GGGCu-----UGUUGGACUuac----UCUGUUCCG- -5'
27324 3' -48.4 NC_005856.1 + 37985 0.76 0.731853
Target:  5'- uUCGGACAguaauuaucccGCCUGAGuagguUGGGACGAGGUu -3'
miRNA:   3'- gGGCUUGU-----------UGGACUU-----ACUCUGUUCCG- -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.