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
16296 5' -55.3 NC_004084.1 + 57137 0.66 0.726643
Target:  5'- -gUGUCGCCGucUCCCUuCuccuugaugauGUCGUCCAg -3'
miRNA:   3'- caGCAGCGGUu-AGGGAcG-----------UAGCAGGU- -5'
16296 5' -55.3 NC_004084.1 + 2350 0.66 0.726643
Target:  5'- --aGUCGUC-GUUCC-GCGUCGUCCu -3'
miRNA:   3'- cagCAGCGGuUAGGGaCGUAGCAGGu -5'
16296 5' -55.3 NC_004084.1 + 1775 0.66 0.726643
Target:  5'- uUCGUccCGCCAGUCCCgaaguucgGCugGUUGUUCGg -3'
miRNA:   3'- cAGCA--GCGGUUAGGGa-------CG--UAGCAGGU- -5'
16296 5' -55.3 NC_004084.1 + 7503 0.66 0.694484
Target:  5'- cGUCGagGCCGAUCCgCUGCuggg-CCAu -3'
miRNA:   3'- -CAGCagCGGUUAGG-GACGuagcaGGU- -5'
16296 5' -55.3 NC_004084.1 + 35421 0.66 0.694484
Target:  5'- aUCGUCGUCGAUCUCgcucGCgagGUCGaCCAg -3'
miRNA:   3'- cAGCAGCGGUUAGGGa---CG---UAGCaGGU- -5'
16296 5' -55.3 NC_004084.1 + 46063 0.66 0.694484
Target:  5'- uUCGUCGCCAccuucgaacGUcCCCUGCucuucaggAUCG-CCGa -3'
miRNA:   3'- cAGCAGCGGU---------UA-GGGACG--------UAGCaGGU- -5'
16296 5' -55.3 NC_004084.1 + 56608 0.66 0.694484
Target:  5'- cGUCGUCGCCGGUCg--GCGaguUCG-CCGg -3'
miRNA:   3'- -CAGCAGCGGUUAGggaCGU---AGCaGGU- -5'
16296 5' -55.3 NC_004084.1 + 51012 0.67 0.68363
Target:  5'- cUCGUCGUCGAUCgCCuUGCucagcUCGUCg- -3'
miRNA:   3'- cAGCAGCGGUUAG-GG-ACGu----AGCAGgu -5'
16296 5' -55.3 NC_004084.1 + 49468 0.67 0.68363
Target:  5'- uUCGUCGCCGcuGUCCUcggagucgucgGCGUCaUCCGg -3'
miRNA:   3'- cAGCAGCGGU--UAGGGa----------CGUAGcAGGU- -5'
16296 5' -55.3 NC_004084.1 + 8880 0.67 0.672726
Target:  5'- uUCGacaCGCCGAUCaCCUcgAUCGUCCGu -3'
miRNA:   3'- cAGCa--GCGGUUAG-GGAcgUAGCAGGU- -5'
16296 5' -55.3 NC_004084.1 + 49738 0.67 0.650813
Target:  5'- --aGUCcUCGGUCCaCUGCGUCGUCaCAu -3'
miRNA:   3'- cagCAGcGGUUAGG-GACGUAGCAG-GU- -5'
16296 5' -55.3 NC_004084.1 + 11021 0.67 0.639827
Target:  5'- uUCGUCGUCGcgCCCUGgAgcUCG-CCGu -3'
miRNA:   3'- cAGCAGCGGUuaGGGACgU--AGCaGGU- -5'
16296 5' -55.3 NC_004084.1 + 29087 0.68 0.606863
Target:  5'- cGUCGUCGCCGcgguagaugcucAUCCa-GCAcaUCGUCUu -3'
miRNA:   3'- -CAGCAGCGGU------------UAGGgaCGU--AGCAGGu -5'
16296 5' -55.3 NC_004084.1 + 16672 0.68 0.595907
Target:  5'- cUCGUCGCCGgcgucGUCCCgauCGUCaUCCGg -3'
miRNA:   3'- cAGCAGCGGU-----UAGGGac-GUAGcAGGU- -5'
16296 5' -55.3 NC_004084.1 + 26500 0.7 0.469023
Target:  5'- gGUCGUCGUCu-UCCCUGC-UCcUCCu -3'
miRNA:   3'- -CAGCAGCGGuuAGGGACGuAGcAGGu -5'
16296 5' -55.3 NC_004084.1 + 36654 0.71 0.449158
Target:  5'- cGUCGaugcCGCCGAUCCCcGUGgaacCGUCCAg -3'
miRNA:   3'- -CAGCa---GCGGUUAGGGaCGUa---GCAGGU- -5'
16296 5' -55.3 NC_004084.1 + 45880 0.71 0.429766
Target:  5'- cGUCGUCGUCGcUCaCCUGCAagcucUCGgaUCCAg -3'
miRNA:   3'- -CAGCAGCGGUuAG-GGACGU-----AGC--AGGU- -5'
16296 5' -55.3 NC_004084.1 + 1415 0.72 0.383528
Target:  5'- -gCGUCGCCAuUCUCgGCGUCG-CCGu -3'
miRNA:   3'- caGCAGCGGUuAGGGaCGUAGCaGGU- -5'
16296 5' -55.3 NC_004084.1 + 36576 1.09 0.001056
Target:  5'- cGUCGUCGCCAAUCCCUGCAUCGUCCAg -3'
miRNA:   3'- -CAGCAGCGGUUAGGGACGUAGCAGGU- -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.