miRNA display CGI


Results 1 - 18 of 18 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
16274 3' -56.9 NC_004084.1 + 46465 0.66 0.680435
Target:  5'- aCCGGgaGGccAGGUGGCGAGAggCaUUGg -3'
miRNA:   3'- -GGUCgaCCa-UCCGCCGCUCUa-GcAGC- -5'
16274 3' -56.9 NC_004084.1 + 17297 0.66 0.66977
Target:  5'- gCGGC-GGU-GGCGGCGAGcacAUCGa-- -3'
miRNA:   3'- gGUCGaCCAuCCGCCGCUC---UAGCagc -5'
16274 3' -56.9 NC_004084.1 + 26464 0.66 0.64835
Target:  5'- cCCgAGCUGGUugAGcGCgccGGCGAcguugaguguGGUCGUCGu -3'
miRNA:   3'- -GG-UCGACCA--UC-CG---CCGCU----------CUAGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 54746 0.66 0.64513
Target:  5'- gCCAGCccGGUGGGCgugccaucggucugGGUGAGGaucUCGaUCGu -3'
miRNA:   3'- -GGUCGa-CCAUCCG--------------CCGCUCU---AGC-AGC- -5'
16274 3' -56.9 NC_004084.1 + 52653 0.67 0.626872
Target:  5'- cUCGGCUGc--GGCGaGacgGAGAUCGUCGu -3'
miRNA:   3'- -GGUCGACcauCCGC-Cg--CUCUAGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 55269 0.67 0.605412
Target:  5'- -----cGGUcGGCGGCGuguAGAUCGUCa -3'
miRNA:   3'- ggucgaCCAuCCGCCGC---UCUAGCAGc -5'
16274 3' -56.9 NC_004084.1 + 18829 0.67 0.58404
Target:  5'- uCCAGgaGGacGGUGGCGcGGcuuUCGUCGa -3'
miRNA:   3'- -GGUCgaCCauCCGCCGCuCU---AGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 30678 0.67 0.58404
Target:  5'- ---cCUGGUGGGCGGUGAccagCGUCu -3'
miRNA:   3'- ggucGACCAUCCGCCGCUcua-GCAGc -5'
16274 3' -56.9 NC_004084.1 + 18538 0.68 0.542856
Target:  5'- aCCAGUgccgcaucgaacucgGGUGGGCcgacGGgGAGAUCG-CGa -3'
miRNA:   3'- -GGUCGa--------------CCAUCCG----CCgCUCUAGCaGC- -5'
16274 3' -56.9 NC_004084.1 + 31459 0.68 0.531405
Target:  5'- aCCAGCgGGcaaUGGauGCGGUGAGcgCGUCc -3'
miRNA:   3'- -GGUCGaCC---AUC--CGCCGCUCuaGCAGc -5'
16274 3' -56.9 NC_004084.1 + 49919 0.69 0.490568
Target:  5'- uCCuucGCUGGauccGGCGGCGcAGGUgGUCa -3'
miRNA:   3'- -GGu--CGACCau--CCGCCGC-UCUAgCAGc -5'
16274 3' -56.9 NC_004084.1 + 48362 0.69 0.470701
Target:  5'- --cGCUGGUuccCGGuCGAGAUCGUCa -3'
miRNA:   3'- gguCGACCAuccGCC-GCUCUAGCAGc -5'
16274 3' -56.9 NC_004084.1 + 39249 0.69 0.460921
Target:  5'- aUCGGCaa--GGGCGGCGGGAagaugguggUCGUCGa -3'
miRNA:   3'- -GGUCGaccaUCCGCCGCUCU---------AGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 54526 0.73 0.306019
Target:  5'- aCCGGCaccu-GGaCGGCGAGAUCGUCc -3'
miRNA:   3'- -GGUCGaccauCC-GCCGCUCUAGCAGc -5'
16274 3' -56.9 NC_004084.1 + 34233 0.74 0.238761
Target:  5'- aCGGCUGucgucGUAGGUGuGCGGGAgCGUCGg -3'
miRNA:   3'- gGUCGAC-----CAUCCGC-CGCUCUaGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 6310 0.8 0.107399
Target:  5'- gCCGuGCUGGUAGGgGGaauacggGAGAUCGUCGc -3'
miRNA:   3'- -GGU-CGACCAUCCgCCg------CUCUAGCAGC- -5'
16274 3' -56.9 NC_004084.1 + 1216 0.8 0.107399
Target:  5'- gCUGGCUGGcucGGCGGCGGGAUCGagGg -3'
miRNA:   3'- -GGUCGACCau-CCGCCGCUCUAGCagC- -5'
16274 3' -56.9 NC_004084.1 + 46184 1.1 0.000727
Target:  5'- cCCAGCUGGUAGGCGGCGAGAUCGUCGu -3'
miRNA:   3'- -GGUCGACCAUCCGCCGCUCUAGCAGC- -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.