miRNA display CGI


Results 1 - 20 of 23 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
18053 3' -58.7 NC_004680.1 + 11655 0.66 0.515811
Target:  5'- uUUCGGCCuauaaCCcCACucagGGCGGCCAc -3'
miRNA:   3'- -AAGCCGGc----GGuGUGuaa-CCGUCGGUc -5'
18053 3' -58.7 NC_004680.1 + 22550 0.66 0.505417
Target:  5'- aUCGGCaaugaCGCuuAUcGGCAGCCAGg -3'
miRNA:   3'- aAGCCGgcg--GUGugUAaCCGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 39396 0.66 0.464801
Target:  5'- gUUGGUCGUUgaccaucuGCACcagGGCGGCCAGu -3'
miRNA:   3'- aAGCCGGCGG--------UGUGuaaCCGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 42177 0.66 0.461822
Target:  5'- gUUGGaCCGCCACGCAgaucgccgaacagcUgGGCuGCCAc -3'
miRNA:   3'- aAGCC-GGCGGUGUGU--------------AaCCGuCGGUc -5'
18053 3' -58.7 NC_004680.1 + 34477 0.67 0.454912
Target:  5'- gUCGGCgaugcugacgauCGCC-CACGU--GCAGCCGGg -3'
miRNA:   3'- aAGCCG------------GCGGuGUGUAacCGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 50001 0.67 0.451968
Target:  5'- -gCGGaaaucacauucaccCCGCCGCGCAcccUGGCAGUgGGa -3'
miRNA:   3'- aaGCC--------------GGCGGUGUGUa--ACCGUCGgUC- -5'
18053 3' -58.7 NC_004680.1 + 27909 0.67 0.425951
Target:  5'- -cCGGCCGCCGaGCu---GCGGCCAa -3'
miRNA:   3'- aaGCCGGCGGUgUGuaacCGUCGGUc -5'
18053 3' -58.7 NC_004680.1 + 27935 0.67 0.416543
Target:  5'- aUCGaCgGCCAUAUGUUGGUcuugGGCCGGg -3'
miRNA:   3'- aAGCcGgCGGUGUGUAACCG----UCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 43621 0.67 0.407264
Target:  5'- -cCGGCCGCC-CugGUcgaacgUGGCGGCg-- -3'
miRNA:   3'- aaGCCGGCGGuGugUA------ACCGUCGguc -5'
18053 3' -58.7 NC_004680.1 + 53889 0.68 0.389099
Target:  5'- cUCGG-UGCCGCACAUcUGGCcGCCc- -3'
miRNA:   3'- aAGCCgGCGGUGUGUA-ACCGuCGGuc -5'
18053 3' -58.7 NC_004680.1 + 42298 0.68 0.389099
Target:  5'- --gGGCaCGCUGCACGgugcgguggUGGCAGCcCAGc -3'
miRNA:   3'- aagCCG-GCGGUGUGUa--------ACCGUCG-GUC- -5'
18053 3' -58.7 NC_004680.1 + 48681 0.68 0.379337
Target:  5'- gUCGGCCGCaaguaccuauaccUGCACggUGaCAGCCGGa -3'
miRNA:   3'- aAGCCGGCG-------------GUGUGuaACcGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 43536 0.68 0.361162
Target:  5'- ---cGCCGCCACGuucgaccagGGCGGCCGGg -3'
miRNA:   3'- aagcCGGCGGUGUguaa-----CCGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 12529 0.68 0.3544
Target:  5'- aUCgGGCCGCCGcCACcaccgGUggugGGCAGCgGGg -3'
miRNA:   3'- aAG-CCGGCGGU-GUG-----UAa---CCGUCGgUC- -5'
18053 3' -58.7 NC_004680.1 + 27510 0.69 0.329844
Target:  5'- aUCGacGUCGCCGCAUAUcUGGCGGUgCAGg -3'
miRNA:   3'- aAGC--CGGCGGUGUGUA-ACCGUCG-GUC- -5'
18053 3' -58.7 NC_004680.1 + 1965 0.69 0.321942
Target:  5'- -cUGGCUGCCAaugugUGGCGGCCGa -3'
miRNA:   3'- aaGCCGGCGGUguguaACCGUCGGUc -5'
18053 3' -58.7 NC_004680.1 + 50192 0.7 0.306566
Target:  5'- -cCGGCUGCuCGCcgaAUUGGUAGCCGa -3'
miRNA:   3'- aaGCCGGCG-GUGug-UAACCGUCGGUc -5'
18053 3' -58.7 NC_004680.1 + 27829 0.7 0.291758
Target:  5'- gUUGGCCGCa--GCuc-GGCGGCCGGa -3'
miRNA:   3'- aAGCCGGCGgugUGuaaCCGUCGGUC- -5'
18053 3' -58.7 NC_004680.1 + 59153 0.72 0.208957
Target:  5'- cUUGGCgGCCGCAuUGUUGGCAGguCCAGu -3'
miRNA:   3'- aAGCCGgCGGUGU-GUAACCGUC--GGUC- -5'
18053 3' -58.7 NC_004680.1 + 40261 0.72 0.208957
Target:  5'- gUUCcuGCCGCCuGCGCAUUGGgAGUCGGa -3'
miRNA:   3'- -AAGc-CGGCGG-UGUGUAACCgUCGGUC- -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.