miRNA display CGI


Results 1 - 20 of 25 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
19012 3' -53.2 NC_004684.1 + 32896 0.66 0.874744
Target:  5'- cCGCCCaauuuUCGGGgGUGUccUCggcggUGCcGGACCg -3'
miRNA:   3'- -GCGGG-----AGCUUgUACA--AG-----ACGaCCUGG- -5'
19012 3' -53.2 NC_004684.1 + 13075 0.66 0.874744
Target:  5'- uGCCCUCGGA-AUGUcagCcGCcaaggGGGCCg -3'
miRNA:   3'- gCGGGAGCUUgUACAa--GaCGa----CCUGG- -5'
19012 3' -53.2 NC_004684.1 + 54583 0.66 0.86686
Target:  5'- cCGUCCUCGGGCGcGUcgUCgGCgggGGugCc -3'
miRNA:   3'- -GCGGGAGCUUGUaCA--AGaCGa--CCugG- -5'
19012 3' -53.2 NC_004684.1 + 60239 0.66 0.86686
Target:  5'- gGCUgUUCGGugGcgGUcaCUGCUGGACCa -3'
miRNA:   3'- gCGG-GAGCUugUa-CAa-GACGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 29609 0.66 0.858734
Target:  5'- cCGCCUUCGc-CAc---CUGCUGGAUCg -3'
miRNA:   3'- -GCGGGAGCuuGUacaaGACGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 34155 0.67 0.832975
Target:  5'- aCGCCCUuuuuggUGAGCGUaagCaGUUGGGCCg -3'
miRNA:   3'- -GCGGGA------GCUUGUAcaaGaCGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 64689 0.67 0.823957
Target:  5'- aCGUCCcagUCGAGCAUGUUg-GCggccgccaGGGCCu -3'
miRNA:   3'- -GCGGG---AGCUUGUACAAgaCGa-------CCUGG- -5'
19012 3' -53.2 NC_004684.1 + 57792 0.67 0.80533
Target:  5'- gCGCuCCUCGAGCAUGcugUCccaGCcacGGAUCa -3'
miRNA:   3'- -GCG-GGAGCUUGUACa--AGa--CGa--CCUGG- -5'
19012 3' -53.2 NC_004684.1 + 35949 0.67 0.80533
Target:  5'- aCGUCCUCGAACggGUUCgGCgucuCCc -3'
miRNA:   3'- -GCGGGAGCUUGuaCAAGaCGaccuGG- -5'
19012 3' -53.2 NC_004684.1 + 31523 0.68 0.765998
Target:  5'- gGCCCgcgCGAACcucgGUUCccUGCccgcgaacUGGACCg -3'
miRNA:   3'- gCGGGa--GCUUGua--CAAG--ACG--------ACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 15036 0.68 0.765998
Target:  5'- gGCaCCaUCGAGUcgGUgCUGCUGGAUCc -3'
miRNA:   3'- gCG-GG-AGCUUGuaCAaGACGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 55665 0.69 0.735026
Target:  5'- gGCCUggCGGcGCAccagCUGCUGGACCu -3'
miRNA:   3'- gCGGGa-GCU-UGUacaaGACGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 8399 0.69 0.713845
Target:  5'- aCGgCCUCGAcgGCAUGUUCcGUgugUGGAaCCc -3'
miRNA:   3'- -GCgGGAGCU--UGUACAAGaCG---ACCU-GG- -5'
19012 3' -53.2 NC_004684.1 + 61315 0.69 0.692344
Target:  5'- cCGCCCccggcaUCGGcuaccagcgcgGCGUGguuggUCaGCUGGGCCg -3'
miRNA:   3'- -GCGGG------AGCU-----------UGUACa----AGaCGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 36313 0.7 0.681501
Target:  5'- aGCCCUCGGcgGCAcGUUC--CUGGAUCc -3'
miRNA:   3'- gCGGGAGCU--UGUaCAAGacGACCUGG- -5'
19012 3' -53.2 NC_004684.1 + 65657 0.7 0.670612
Target:  5'- cCGCCCUCGGugGUGgugaggUCgcgGCacUGG-CCg -3'
miRNA:   3'- -GCGGGAGCUugUACa-----AGa--CG--ACCuGG- -5'
19012 3' -53.2 NC_004684.1 + 60371 0.71 0.615833
Target:  5'- uGUCCUUGAuCGUGUaCUGCgGGAaCCg -3'
miRNA:   3'- gCGGGAGCUuGUACAaGACGaCCU-GG- -5'
19012 3' -53.2 NC_004684.1 + 35189 0.71 0.593951
Target:  5'- gGCUCcCGGACGUGccgaUCUGCUGGAa- -3'
miRNA:   3'- gCGGGaGCUUGUACa---AGACGACCUgg -5'
19012 3' -53.2 NC_004684.1 + 19079 0.71 0.593951
Target:  5'- uGCCCU-GGACAgcgaaCUGCUGGugCg -3'
miRNA:   3'- gCGGGAgCUUGUacaa-GACGACCugG- -5'
19012 3' -53.2 NC_004684.1 + 37269 0.71 0.583055
Target:  5'- cCGCCCgaGGACAUGUccgagCUGgUGGACa -3'
miRNA:   3'- -GCGGGagCUUGUACAa----GACgACCUGg -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.