miRNA display CGI


Results 1 - 16 of 16 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
28535 3' -61.1 NC_005946.1 + 49695 0.66 0.572883
Target:  5'- cCUCAgGGCguacaccagCCUCCUGGcGGucuuuacguCGGGGACc -3'
miRNA:   3'- -GAGU-CCG---------GGAGGACCuCCu--------GUCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 48485 0.66 0.542862
Target:  5'- -cCAGGaCCCUCCUGaggaagauGAGGgcucccucugGCAGGGGu -3'
miRNA:   3'- gaGUCC-GGGAGGAC--------CUCC----------UGUCCCUg -5'
28535 3' -61.1 NC_005946.1 + 76570 0.66 0.542862
Target:  5'- gUCGGGCCCgug-GGAGcGGCugggccucAGGGGCa -3'
miRNA:   3'- gAGUCCGGGaggaCCUC-CUG--------UCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 58266 0.67 0.523137
Target:  5'- -aCAGGUccuggucaacaCCUCCagcaUGGAGGugGuGGGACc -3'
miRNA:   3'- gaGUCCG-----------GGAGG----ACCUCCugU-CCCUG- -5'
28535 3' -61.1 NC_005946.1 + 41520 0.67 0.522158
Target:  5'- cCUUGGGUCC-CCUGGAuccccuuGGACcugugccgccacGGGGACc -3'
miRNA:   3'- -GAGUCCGGGaGGACCU-------CCUG------------UCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 3233 0.67 0.48457
Target:  5'- uUCAGGCUCUaCaggaUGGGGGACAGaGAg -3'
miRNA:   3'- gAGUCCGGGA-Gg---ACCUCCUGUCcCUg -5'
28535 3' -61.1 NC_005946.1 + 25892 0.67 0.48457
Target:  5'- aCUCuAGGCCCgUCCUc---GACGGGGACc -3'
miRNA:   3'- -GAG-UCCGGG-AGGAccucCUGUCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 25354 0.67 0.48457
Target:  5'- gCUgGGGaagCUCCUgGGAGGACAGauGGACu -3'
miRNA:   3'- -GAgUCCgg-GAGGA-CCUCCUGUC--CCUG- -5'
28535 3' -61.1 NC_005946.1 + 74789 0.68 0.465801
Target:  5'- -cCAGGcCCCUCUUGGAGGcguacugaaGCAGGuuguaagcGGCg -3'
miRNA:   3'- gaGUCC-GGGAGGACCUCC---------UGUCC--------CUG- -5'
28535 3' -61.1 NC_005946.1 + 34918 0.68 0.447416
Target:  5'- -cCAGuCCCUCCUgaccgGGAGGAC-GGGAa -3'
miRNA:   3'- gaGUCcGGGAGGA-----CCUCCUGuCCCUg -5'
28535 3' -61.1 NC_005946.1 + 56076 0.69 0.403295
Target:  5'- cCUCAGGCUCUCCa--GGGugAGGGu- -3'
miRNA:   3'- -GAGUCCGGGAGGaccUCCugUCCCug -5'
28535 3' -61.1 NC_005946.1 + 63815 0.7 0.362029
Target:  5'- -aCAGGCCCUCUUGacguAGGGucUGGGGACc -3'
miRNA:   3'- gaGUCCGGGAGGACc---UCCU--GUCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 88149 0.72 0.275449
Target:  5'- gCUCAGGCCCugUCCagGGuGG-UGGGGACc -3'
miRNA:   3'- -GAGUCCGGG--AGGa-CCuCCuGUCCCUG- -5'
28535 3' -61.1 NC_005946.1 + 9227 0.72 0.26274
Target:  5'- -gCAGGUCgcaagCUCCUcaGGAGGGCAGGGGa -3'
miRNA:   3'- gaGUCCGG-----GAGGA--CCUCCUGUCCCUg -5'
28535 3' -61.1 NC_005946.1 + 69220 0.72 0.26274
Target:  5'- gUCAuGGCCCcgUCCUGGaAGGGCAGGuagccccucuuGACg -3'
miRNA:   3'- gAGU-CCGGG--AGGACC-UCCUGUCC-----------CUG- -5'
28535 3' -61.1 NC_005946.1 + 13234 0.72 0.243988
Target:  5'- -cCAGGCCauagccaggUCCUGGAGGGCGGGuucccacGACa -3'
miRNA:   3'- gaGUCCGGg--------AGGACCUCCUGUCC-------CUG- -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.