miRNA display CGI


Results 1 - 13 of 13 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
20738 3' -55.5 NC_004688.1 + 108707 0.66 0.879712
Target:  5'- --aCCGAaCUCGAGCGGCgUGGUaUCc -3'
miRNA:   3'- augGGCUaGGGCUUGCCGaGCCAaAG- -5'
20738 3' -55.5 NC_004688.1 + 44906 0.66 0.872331
Target:  5'- aGCCUGuucagcgaCCGGgauCGGCUCGGUgUCa -3'
miRNA:   3'- aUGGGCuag-----GGCUu--GCCGAGCCAaAG- -5'
20738 3' -55.5 NC_004688.1 + 88280 0.66 0.87158
Target:  5'- gGCCCGAauguucccaUCCCccacauccccgauGGACGGCUCuagGGUUa- -3'
miRNA:   3'- aUGGGCU---------AGGG-------------CUUGCCGAG---CCAAag -5'
20738 3' -55.5 NC_004688.1 + 93421 0.66 0.864724
Target:  5'- gGCUCGccguUCUCGAACGGCU-GGUcgCa -3'
miRNA:   3'- aUGGGCu---AGGGCUUGCCGAgCCAaaG- -5'
20738 3' -55.5 NC_004688.1 + 14288 0.67 0.84061
Target:  5'- cGCCCcaAUCCCccgcCGGCUCGGUg-- -3'
miRNA:   3'- aUGGGc-UAGGGcuu-GCCGAGCCAaag -5'
20738 3' -55.5 NC_004688.1 + 81008 0.67 0.839774
Target:  5'- cGCgCGA-CCaCGAugGGCUCaaacgauGGUUUCa -3'
miRNA:   3'- aUGgGCUaGG-GCUugCCGAG-------CCAAAG- -5'
20738 3' -55.5 NC_004688.1 + 72690 0.67 0.823526
Target:  5'- aACCCuGAUCCCGAugGcGCgaaccgccggCGGggaaUUCa -3'
miRNA:   3'- aUGGG-CUAGGGCUugC-CGa---------GCCa---AAG- -5'
20738 3' -55.5 NC_004688.1 + 38339 0.67 0.814706
Target:  5'- gUGCCCauccacAUCCCGGACGcGCUgcCGGaUUUCu -3'
miRNA:   3'- -AUGGGc-----UAGGGCUUGC-CGA--GCC-AAAG- -5'
20738 3' -55.5 NC_004688.1 + 41347 0.67 0.814706
Target:  5'- gACCCGcgCCCGGAUGaaguuCUUGGUUg- -3'
miRNA:   3'- aUGGGCuaGGGCUUGCc----GAGCCAAag -5'
20738 3' -55.5 NC_004688.1 + 36999 0.67 0.805712
Target:  5'- gGCCCGAaCCCGAGaauCGGUUCG--UUCc -3'
miRNA:   3'- aUGGGCUaGGGCUU---GCCGAGCcaAAG- -5'
20738 3' -55.5 NC_004688.1 + 5131 0.68 0.787236
Target:  5'- gGCCCGG-CCCGcauuGCGGCgggUGGUg-- -3'
miRNA:   3'- aUGGGCUaGGGCu---UGCCGa--GCCAaag -5'
20738 3' -55.5 NC_004688.1 + 86806 0.68 0.781576
Target:  5'- cACCCGGaucgUCCCGAAcgggaccgccgguccCGGCuucUCGGUgacgUCg -3'
miRNA:   3'- aUGGGCU----AGGGCUU---------------GCCG---AGCCAa---AG- -5'
20738 3' -55.5 NC_004688.1 + 36802 0.68 0.777774
Target:  5'- cACCCGAagCCGGugGGCUUGu---- -3'
miRNA:   3'- aUGGGCUagGGCUugCCGAGCcaaag -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.