miRNA display CGI


Results 1 - 19 of 19 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
3101 3' -57.7 NC_001493.1 + 28715 0.66 0.841071
Target:  5'- gGAuGGACucGAGGCGGaacUCGGG-CGu -3'
miRNA:   3'- aCU-CCUGu-CUCCGCCgauAGCCCuGC- -5'
3101 3' -57.7 NC_001493.1 + 3228 0.66 0.825374
Target:  5'- cGAGGuggaguCAGAGGCGGaCgaggacccggacgagGUCGaGGAUGc -3'
miRNA:   3'- aCUCCu-----GUCUCCGCC-Ga--------------UAGC-CCUGC- -5'
3101 3' -57.7 NC_001493.1 + 118782 0.66 0.825374
Target:  5'- cGAGGuggaguCAGAGGCGGaCgaggacccggacgagGUCGaGGAUGc -3'
miRNA:   3'- aCUCCu-----GUCUCCGCC-Ga--------------UAGC-CCUGC- -5'
3101 3' -57.7 NC_001493.1 + 124815 0.66 0.807298
Target:  5'- -cAGGACcggGGAGGCgGGCg--UGGGGCu -3'
miRNA:   3'- acUCCUG---UCUCCG-CCGauaGCCCUGc -5'
3101 3' -57.7 NC_001493.1 + 9261 0.66 0.807298
Target:  5'- -cAGGACcggGGAGGCgGGCg--UGGGGCu -3'
miRNA:   3'- acUCCUG---UCUCCG-CCGauaGCCCUGc -5'
3101 3' -57.7 NC_001493.1 + 34095 0.67 0.780294
Target:  5'- uUGGGGAUgcucGGGGCucGGgaGUUGGGACa -3'
miRNA:   3'- -ACUCCUGu---CUCCG--CCgaUAGCCCUGc -5'
3101 3' -57.7 NC_001493.1 + 65992 0.67 0.76162
Target:  5'- aGGGGGguGGGGCGuucGUCGgGGACGu -3'
miRNA:   3'- aCUCCUguCUCCGCcgaUAGC-CCUGC- -5'
3101 3' -57.7 NC_001493.1 + 12162 0.67 0.752108
Target:  5'- cGucGAgGGAGGCGGgaAUagaugguggacCGGGACGa -3'
miRNA:   3'- aCucCUgUCUCCGCCgaUA-----------GCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 127717 0.67 0.742492
Target:  5'- cGucGAgGGAGGCGGgaAUagaugguggcCGGGACGa -3'
miRNA:   3'- aCucCUgUCUCCGCCgaUA----------GCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 60131 0.68 0.70017
Target:  5'- cGAGGAUcgguGGGGCGGCggaugaacucgaaGGGAUGa -3'
miRNA:   3'- aCUCCUGu---CUCCGCCGauag---------CCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 3625 0.69 0.652736
Target:  5'- gGAGGAUccguGGGGC-GCUccUCGGGACGc -3'
miRNA:   3'- aCUCCUGu---CUCCGcCGAu-AGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 119180 0.69 0.652736
Target:  5'- gGAGGAUccguGGGGC-GCUccUCGGGACGc -3'
miRNA:   3'- aCUCCUGu---CUCCGcCGAu-AGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 22099 0.69 0.642568
Target:  5'- --cGGACAG-GGUcGCgAUCGGGACGu -3'
miRNA:   3'- acuCCUGUCuCCGcCGaUAGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 42064 0.72 0.483581
Target:  5'- --cGuGAUAGGGGCGGCcc-CGGGACGu -3'
miRNA:   3'- acuC-CUGUCUCCGCCGauaGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 115701 0.72 0.464881
Target:  5'- aGGGGGCguGGGGGUGGCga--GGGugGg -3'
miRNA:   3'- aCUCCUG--UCUCCGCCGauagCCCugC- -5'
3101 3' -57.7 NC_001493.1 + 37932 0.73 0.446563
Target:  5'- aGGGGcuuCAG-GGCGGggAUCGGGAUGu -3'
miRNA:   3'- aCUCCu--GUCuCCGCCgaUAGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 98658 0.74 0.385808
Target:  5'- --uGGA-AGAGGUGGCUAUCGGGGa- -3'
miRNA:   3'- acuCCUgUCUCCGCCGAUAGCCCUgc -5'
3101 3' -57.7 NC_001493.1 + 20824 0.74 0.361495
Target:  5'- --cGGACuGGuGGCGGCUcUCGGGAUGu -3'
miRNA:   3'- acuCCUG-UCuCCGCCGAuAGCCCUGC- -5'
3101 3' -57.7 NC_001493.1 + 92785 1.08 0.00215
Target:  5'- gUGAGGACAGAGGCGGCUAUCGGGACGc -3'
miRNA:   3'- -ACUCCUGUCUCCGCCGAUAGCCCUGC- -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.