miRNA display CGI


Results 1 - 20 of 38 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
28920 5' -54.1 NC_006146.1 + 11150 0.66 0.965928
Target:  5'- gGUgGugGUCAcggAGGCauucaaggagcgCCUCUACGGGGg -3'
miRNA:   3'- gUAgUugCAGU---UCCG------------GGAGGUGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 43504 0.66 0.964949
Target:  5'- --cCGGCGgCGGGGCCCagccccaagacaccUCCACgAGGGg -3'
miRNA:   3'- guaGUUGCaGUUCCGGG--------------AGGUG-UCCU- -5'
28920 5' -54.1 NC_006146.1 + 53322 0.66 0.962587
Target:  5'- aGUCcgagccCGagGAGGCCCggcggCCGCGGGGc -3'
miRNA:   3'- gUAGuu----GCagUUCCGGGa----GGUGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 99126 0.66 0.962587
Target:  5'- --cCGGCcUC-AGGCgUCUCCACAGGGg -3'
miRNA:   3'- guaGUUGcAGuUCCG-GGAGGUGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 166532 0.66 0.959025
Target:  5'- ---aAGCGgCAGGGUCCUUgGCAGGu -3'
miRNA:   3'- guagUUGCaGUUCCGGGAGgUGUCCu -5'
28920 5' -54.1 NC_006146.1 + 106655 0.66 0.955236
Target:  5'- --cCGGCugGUCAGGGCCgUCCucuccccgggcACGGGAu -3'
miRNA:   3'- guaGUUG--CAGUUCCGGgAGG-----------UGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 69865 0.66 0.955236
Target:  5'- gGUCgGGCGUaGAGGCCCaggUCCACGGc- -3'
miRNA:   3'- gUAG-UUGCAgUUCCGGG---AGGUGUCcu -5'
28920 5' -54.1 NC_006146.1 + 125850 0.66 0.955236
Target:  5'- uCAUCAAgcccaaggccCG-CGAGGCCCUCCucgaAGGc -3'
miRNA:   3'- -GUAGUU----------GCaGUUCCGGGAGGug--UCCu -5'
28920 5' -54.1 NC_006146.1 + 115783 0.66 0.951217
Target:  5'- aCAUgGAgGUgGAGGCCCUggagCUgaACAGGAu -3'
miRNA:   3'- -GUAgUUgCAgUUCCGGGA----GG--UGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 56532 0.67 0.946963
Target:  5'- cCAUCAgcagcugacGCGUCAcgcgggccAGGCCCccguccaccUCCGuCAGGGg -3'
miRNA:   3'- -GUAGU---------UGCAGU--------UCCGGG---------AGGU-GUCCU- -5'
28920 5' -54.1 NC_006146.1 + 14837 0.67 0.946963
Target:  5'- ------gGUCucGGGCCCggggCCGCGGGAg -3'
miRNA:   3'- guaguugCAGu-UCCGGGa---GGUGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 28426 0.67 0.946963
Target:  5'- --gCGGC-UCcGGGUCaCUCCACGGGAg -3'
miRNA:   3'- guaGUUGcAGuUCCGG-GAGGUGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 118071 0.67 0.942471
Target:  5'- --gCGGCGgCucGGCCCUCCGCAuccuGGGc -3'
miRNA:   3'- guaGUUGCaGuuCCGGGAGGUGU----CCU- -5'
28920 5' -54.1 NC_006146.1 + 124956 0.67 0.942471
Target:  5'- ---gAGCGUCGAGGUCC-CCAgAGaGAc -3'
miRNA:   3'- guagUUGCAGUUCCGGGaGGUgUC-CU- -5'
28920 5' -54.1 NC_006146.1 + 148038 0.67 0.937739
Target:  5'- gAUCGGCGUUggGGCCCaUgAUgaugAGGAg -3'
miRNA:   3'- gUAGUUGCAGuuCCGGGaGgUG----UCCU- -5'
28920 5' -54.1 NC_006146.1 + 116246 0.67 0.937739
Target:  5'- gGUCuACGaCGGGGcCCCUCCAaugccCGGGGa -3'
miRNA:   3'- gUAGuUGCaGUUCC-GGGAGGU-----GUCCU- -5'
28920 5' -54.1 NC_006146.1 + 69612 0.68 0.922089
Target:  5'- ---aGACGUCcAGGCCCacgUCCcCGGGGu -3'
miRNA:   3'- guagUUGCAGuUCCGGG---AGGuGUCCU- -5'
28920 5' -54.1 NC_006146.1 + 63356 0.68 0.91044
Target:  5'- --gUAACuGggcaCAGGGCCCUCCugGGGc -3'
miRNA:   3'- guaGUUG-Ca---GUUCCGGGAGGugUCCu -5'
28920 5' -54.1 NC_006146.1 + 22591 0.68 0.91044
Target:  5'- aAUgGACGUCu-GGCUCUCCGCGcuccugcuGGAg -3'
miRNA:   3'- gUAgUUGCAGuuCCGGGAGGUGU--------CCU- -5'
28920 5' -54.1 NC_006146.1 + 49872 0.68 0.91044
Target:  5'- cCAUCAcCGUCGggaggcugGGGUCCUCCgGUAGGAg -3'
miRNA:   3'- -GUAGUuGCAGU--------UCCGGGAGG-UGUCCU- -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.