miRNA display CGI


Results 1 - 20 of 27 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
17506 5' -53.8 NC_004456.1 + 14877 0.66 0.712142
Target:  5'- --aGCAAAuGCCcGAGCCAUGCAgacGGCa -3'
miRNA:   3'- ucgCGUUUcCGGcUUCGGUGUGU---UCG- -5'
17506 5' -53.8 NC_004456.1 + 19803 0.66 0.70094
Target:  5'- aAGUGC--AGGCCcuGGCaaACACAGGCc -3'
miRNA:   3'- -UCGCGuuUCCGGcuUCGg-UGUGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 15842 0.66 0.689666
Target:  5'- uGCGCGAacAGcGCCGGGcCCGCcguauccaaaACGAGCu -3'
miRNA:   3'- uCGCGUU--UC-CGGCUUcGGUG----------UGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 26021 0.66 0.666949
Target:  5'- -cCGCu--GGCCGGAGCauauCAAGCg -3'
miRNA:   3'- ucGCGuuuCCGGCUUCGguguGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 1336 0.66 0.666949
Target:  5'- gGGC-CAaaacGAGGCUGAcaAGUCAUACAacaAGCa -3'
miRNA:   3'- -UCGcGU----UUCCGGCU--UCGGUGUGU---UCG- -5'
17506 5' -53.8 NC_004456.1 + 17600 0.66 0.666949
Target:  5'- uGGCuuAAucGCCGggGCCGCAUAGu- -3'
miRNA:   3'- -UCGcgUUucCGGCuuCGGUGUGUUcg -5'
17506 5' -53.8 NC_004456.1 + 24477 0.67 0.655532
Target:  5'- aAGCcauuGCAGAGGCCGuggugGAGCauauCACcgGAGCg -3'
miRNA:   3'- -UCG----CGUUUCCGGC-----UUCGgu--GUG--UUCG- -5'
17506 5' -53.8 NC_004456.1 + 23178 0.67 0.621186
Target:  5'- gGGCGCAAGGGCgGuuuacuGAGCUGCugcgcCAAGa -3'
miRNA:   3'- -UCGCGUUUCCGgC------UUCGGUGu----GUUCg -5'
17506 5' -53.8 NC_004456.1 + 33594 0.67 0.621186
Target:  5'- aGGCGUucuu-UCGAcuuGGCCACACGGGCu -3'
miRNA:   3'- -UCGCGuuuccGGCU---UCGGUGUGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 15956 0.67 0.620041
Target:  5'- aGGUGCucgccauGAAGGCa-AGGCCACGacCGAGCu -3'
miRNA:   3'- -UCGCG-------UUUCCGgcUUCGGUGU--GUUCG- -5'
17506 5' -53.8 NC_004456.1 + 15389 0.67 0.609744
Target:  5'- cGCGC-AGGGCaucaccGGCCACACuGGUc -3'
miRNA:   3'- uCGCGuUUCCGgcu---UCGGUGUGuUCG- -5'
17506 5' -53.8 NC_004456.1 + 17487 0.67 0.609744
Target:  5'- uAGCGC--AGGCCGuaauacccauGCUAaaacCGCAAGCa -3'
miRNA:   3'- -UCGCGuuUCCGGCuu--------CGGU----GUGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 21860 0.67 0.609744
Target:  5'- aAGaUGCGAAcguGGCCGAGucauGCCGC-CAAGUg -3'
miRNA:   3'- -UC-GCGUUU---CCGGCUU----CGGUGuGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 41022 0.67 0.608601
Target:  5'- aGGCGguAAGuaaagaaGCCGccGCCAUACAAcuGCa -3'
miRNA:   3'- -UCGCguUUC-------CGGCuuCGGUGUGUU--CG- -5'
17506 5' -53.8 NC_004456.1 + 36562 0.68 0.586932
Target:  5'- cAGCGgGAA-GCCGuGGGCCAUACucAGCc -3'
miRNA:   3'- -UCGCgUUUcCGGC-UUCGGUGUGu-UCG- -5'
17506 5' -53.8 NC_004456.1 + 35464 0.68 0.575583
Target:  5'- --aGCAAuuGGCCGAGGCUgaaaagacccGCcaGCAAGCg -3'
miRNA:   3'- ucgCGUUu-CCGGCUUCGG----------UG--UGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 6729 0.68 0.564284
Target:  5'- -aCuCGAAGGCCGAAaGCCuucCugGAGCg -3'
miRNA:   3'- ucGcGUUUCCGGCUU-CGGu--GugUUCG- -5'
17506 5' -53.8 NC_004456.1 + 36278 0.68 0.564284
Target:  5'- -cUGCAGAGGCUGAccaaGGCCAgCcUGAGCg -3'
miRNA:   3'- ucGCGUUUCCGGCU----UCGGU-GuGUUCG- -5'
17506 5' -53.8 NC_004456.1 + 34719 0.68 0.564284
Target:  5'- cGGCGCAccGGCUaAAGCCA---AAGCa -3'
miRNA:   3'- -UCGCGUuuCCGGcUUCGGUgugUUCG- -5'
17506 5' -53.8 NC_004456.1 + 36311 0.69 0.519765
Target:  5'- -uCGUAAcGGCC-AAGCC-CGCAAGCu -3'
miRNA:   3'- ucGCGUUuCCGGcUUCGGuGUGUUCG- -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.