miRNA display CGI


Results 1 - 20 of 29 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
1438 3' -58.1 NC_001335.1 + 17948 0.66 0.559519
Target:  5'- aGGCcgagaGGCGcUGCGAAcCAGCUCGaCCa -3'
miRNA:   3'- -CCG-----CCGCuACGUUUcGUCGAGCcGGc -5'
1438 3' -58.1 NC_001335.1 + 1255 0.66 0.559519
Target:  5'- uGGCGGCGGaagUGgAGccGGCGGCggUGGCa- -3'
miRNA:   3'- -CCGCCGCU---ACgUU--UCGUCGa-GCCGgc -5'
1438 3' -58.1 NC_001335.1 + 29171 0.66 0.548868
Target:  5'- cGGCGGUGggGCGAA--GGCUCucGCUGa -3'
miRNA:   3'- -CCGCCGCuaCGUUUcgUCGAGc-CGGC- -5'
1438 3' -58.1 NC_001335.1 + 45812 0.66 0.548868
Target:  5'- uGGCGcucaCGAgacu-GGCAGUUCGGCCa -3'
miRNA:   3'- -CCGCc---GCUacguuUCGUCGAGCCGGc -5'
1438 3' -58.1 NC_001335.1 + 7252 0.66 0.547806
Target:  5'- uGCGGaguaGAUGaUGAAGCGGUUCacguccaGGCCGu -3'
miRNA:   3'- cCGCCg---CUAC-GUUUCGUCGAG-------CCGGC- -5'
1438 3' -58.1 NC_001335.1 + 46360 0.66 0.538281
Target:  5'- aGCGGCuAUGCccacGGuCAGCgcgaCGGCCGc -3'
miRNA:   3'- cCGCCGcUACGuu--UC-GUCGa---GCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 27156 0.66 0.538281
Target:  5'- aGGCGGacagGCucaggguGGCGGCaaGGCCGa -3'
miRNA:   3'- -CCGCCgcuaCGuu-----UCGUCGagCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 19376 0.66 0.527765
Target:  5'- uGCGGCGcUGCAagcgcGAGCAGgaaCGGCUc -3'
miRNA:   3'- cCGCCGCuACGU-----UUCGUCga-GCCGGc -5'
1438 3' -58.1 NC_001335.1 + 22941 0.66 0.517326
Target:  5'- cGGCGGCGuauCGAGGCccAGaUCGGCUa -3'
miRNA:   3'- -CCGCCGCuacGUUUCG--UCgAGCCGGc -5'
1438 3' -58.1 NC_001335.1 + 14457 0.67 0.496705
Target:  5'- aGGCGGCGAgucCGAGGUcaagGGCUCcuGGCa- -3'
miRNA:   3'- -CCGCCGCUac-GUUUCG----UCGAG--CCGgc -5'
1438 3' -58.1 NC_001335.1 + 9385 0.67 0.486534
Target:  5'- cGGC-GCGuugGUGAAGUuggccAGCUCGGCUGc -3'
miRNA:   3'- -CCGcCGCua-CGUUUCG-----UCGAGCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 29375 0.68 0.437265
Target:  5'- uGCGGCGAUGCuucaucgcuGAGCcaGGCgauugaUGGCCu -3'
miRNA:   3'- cCGCCGCUACGu--------UUCG--UCGa-----GCCGGc -5'
1438 3' -58.1 NC_001335.1 + 2310 0.68 0.437265
Target:  5'- cGCcGCGAggucgGCAAGGagugAGCUgGGCCGg -3'
miRNA:   3'- cCGcCGCUa----CGUUUCg---UCGAgCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 16364 0.68 0.427757
Target:  5'- aGCaGGgacucacccCGGUGUuccAGCAGCUCGGCCc -3'
miRNA:   3'- cCG-CC---------GCUACGuu-UCGUCGAGCCGGc -5'
1438 3' -58.1 NC_001335.1 + 49393 0.69 0.390987
Target:  5'- cGGCGGCGAgGUuu-GCcGCUacuaCGGCCa -3'
miRNA:   3'- -CCGCCGCUaCGuuuCGuCGA----GCCGGc -5'
1438 3' -58.1 NC_001335.1 + 11056 0.69 0.382121
Target:  5'- aGCGGUGucgcGCucAGCgAGCUUGGCCu -3'
miRNA:   3'- cCGCCGCua--CGuuUCG-UCGAGCCGGc -5'
1438 3' -58.1 NC_001335.1 + 22757 0.69 0.382121
Target:  5'- uGGUGGcCGucgGCAcGGUAGUacccUCGGCCGc -3'
miRNA:   3'- -CCGCC-GCua-CGUuUCGUCG----AGCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 9840 0.69 0.368219
Target:  5'- uGGUGGUGAUGCGugaccgcagaggaguAcgcGGCGGCUCaaGCCGc -3'
miRNA:   3'- -CCGCCGCUACGU---------------U---UCGUCGAGc-CGGC- -5'
1438 3' -58.1 NC_001335.1 + 32703 0.69 0.364797
Target:  5'- cGGCGGUGuUGaccuuGGcCAGCacgUCGGCCGg -3'
miRNA:   3'- -CCGCCGCuACguu--UC-GUCG---AGCCGGC- -5'
1438 3' -58.1 NC_001335.1 + 16775 0.69 0.356341
Target:  5'- uGCaGGCGAUGgGA--CAGCUCGGCgGu -3'
miRNA:   3'- cCG-CCGCUACgUUucGUCGAGCCGgC- -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.