miRNA display CGI


Results 1 - 20 of 51 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
28812 3' -52.8 NC_006146.1 + 99086 1.11 0.004522
Target:  5'- gCUCUACAUCAGUGGCAACCAGUCCCCc -3'
miRNA:   3'- -GAGAUGUAGUCACCGUUGGUCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 116093 0.74 0.691705
Target:  5'- --gUGCAU-GGUGGCGGCCacccgagGGUCCCCg -3'
miRNA:   3'- gagAUGUAgUCACCGUUGG-------UCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 139204 0.73 0.743067
Target:  5'- -------gCGGUGGCAGCCgcGGUCCCCc -3'
miRNA:   3'- gagauguaGUCACCGUUGG--UCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 140275 0.73 0.752873
Target:  5'- cCUCUuuCAUCAGUGGCAACaugUAGgauauacugCCCCc -3'
miRNA:   3'- -GAGAu-GUAGUCACCGUUG---GUCa--------GGGG- -5'
28812 3' -52.8 NC_006146.1 + 13246 0.72 0.800072
Target:  5'- uUCUACAUCAGccUGGUccaggGGCUGGUgCCCa -3'
miRNA:   3'- gAGAUGUAGUC--ACCG-----UUGGUCAgGGG- -5'
28812 3' -52.8 NC_006146.1 + 57371 0.72 0.817045
Target:  5'- -gCUGCggCGGUGGC-GCCGGUgggcuggCCCCg -3'
miRNA:   3'- gaGAUGuaGUCACCGuUGGUCA-------GGGG- -5'
28812 3' -52.8 NC_006146.1 + 146399 0.72 0.817921
Target:  5'- -cCUACGUgCAGUGGCuu---GUCCCCg -3'
miRNA:   3'- gaGAUGUA-GUCACCGuugguCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 75961 0.71 0.826589
Target:  5'- cCUCUACcgCA---GCGGCCAcGUCCCCu -3'
miRNA:   3'- -GAGAUGuaGUcacCGUUGGU-CAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 51010 0.71 0.835075
Target:  5'- cCUCUACGUCAGacaGGUAgcguacgagGCCGGaUCCCa -3'
miRNA:   3'- -GAGAUGUAGUCa--CCGU---------UGGUC-AGGGg -5'
28812 3' -52.8 NC_006146.1 + 25689 0.71 0.835075
Target:  5'- uUCUACGUCuacccucaggAGUGGaAGCCGGgccagCCCCu -3'
miRNA:   3'- gAGAUGUAG----------UCACCgUUGGUCa----GGGG- -5'
28812 3' -52.8 NC_006146.1 + 60345 0.71 0.866286
Target:  5'- gUCUACucugCGGUgGGCAGCCucuuugaacaggaGGUCUCCg -3'
miRNA:   3'- gAGAUGua--GUCA-CCGUUGG-------------UCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 56616 0.7 0.87451
Target:  5'- cCUCgccgGCGUCcauAGUGGCAGCCaugaaGGUCCa- -3'
miRNA:   3'- -GAGa---UGUAG---UCACCGUUGG-----UCAGGgg -5'
28812 3' -52.8 NC_006146.1 + 103240 0.7 0.888764
Target:  5'- ---aACuggCGGuUGGCGGCCGcGUCCCCg -3'
miRNA:   3'- gagaUGua-GUC-ACCGUUGGU-CAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 118084 0.7 0.888764
Target:  5'- cCUCcGCAUCcugGGCAcggccucgugcaACCAGUCCCa -3'
miRNA:   3'- -GAGaUGUAGucaCCGU------------UGGUCAGGGg -5'
28812 3' -52.8 NC_006146.1 + 1227 0.7 0.888764
Target:  5'- gCUCUugGcCGGUGGCAGCau-UCUCCa -3'
miRNA:   3'- -GAGAugUaGUCACCGUUGgucAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 44344 0.7 0.889452
Target:  5'- uUCUGCAcaGGUGGCugauggggacgagguGCCAGaCCCCc -3'
miRNA:   3'- gAGAUGUagUCACCGu--------------UGGUCaGGGG- -5'
28812 3' -52.8 NC_006146.1 + 120914 0.69 0.914451
Target:  5'- uUCgUGCA-CAauGUGGCGGCCGGUCCa- -3'
miRNA:   3'- gAG-AUGUaGU--CACCGUUGGUCAGGgg -5'
28812 3' -52.8 NC_006146.1 + 24358 0.69 0.925837
Target:  5'- -gCUACAagUAGUGGCGcaggGCCAG-CUCCa -3'
miRNA:   3'- gaGAUGUa-GUCACCGU----UGGUCaGGGG- -5'
28812 3' -52.8 NC_006146.1 + 199 0.69 0.925837
Target:  5'- uCUCUACGcgcCGGUGcccccGCGA-CGGUCCCCg -3'
miRNA:   3'- -GAGAUGUa--GUCAC-----CGUUgGUCAGGGG- -5'
28812 3' -52.8 NC_006146.1 + 103501 0.69 0.925838
Target:  5'- gUCUuuugcuCGUCAGUGGCcuCCuGUaggCCCCg -3'
miRNA:   3'- gAGAu-----GUAGUCACCGuuGGuCA---GGGG- -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.