miRNA display CGI


Results 1 - 17 of 17 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
22355 3' -56.6 NC_005045.1 + 28877 1.09 0.000557
Target:  5'- aACGUCGGACAGACGCAACUCCAGCCGg -3'
miRNA:   3'- -UGCAGCCUGUCUGCGUUGAGGUCGGC- -5'
22355 3' -56.6 NC_005045.1 + 25750 0.66 0.59858
Target:  5'- cCGUCcgcugaacacccaGGcCAaGCGUAGCUUCAGCCGg -3'
miRNA:   3'- uGCAG-------------CCuGUcUGCGUUGAGGUCGGC- -5'
22355 3' -56.6 NC_005045.1 + 21029 0.66 0.576594
Target:  5'- aAUGaUCGGACAGAguugcugguauucCGCGAUggCCAGuuGg -3'
miRNA:   3'- -UGC-AGCCUGUCU-------------GCGUUGa-GGUCggC- -5'
22355 3' -56.6 NC_005045.1 + 28917 0.68 0.481835
Target:  5'- gGCG-CGGAguG-CGCGACUCCgaGGUCa -3'
miRNA:   3'- -UGCaGCCUguCuGCGUUGAGG--UCGGc -5'
22355 3' -56.6 NC_005045.1 + 38102 0.68 0.461545
Target:  5'- uCGUCGGuACGGGCaaaGUGAC-CCGGCCu -3'
miRNA:   3'- uGCAGCC-UGUCUG---CGUUGaGGUCGGc -5'
22355 3' -56.6 NC_005045.1 + 14844 0.68 0.455546
Target:  5'- aACGUCGcGGCGGaugcugGCGCGACUgccgccccugcuguaCCGGCUGu -3'
miRNA:   3'- -UGCAGC-CUGUC------UGCGUUGA---------------GGUCGGC- -5'
22355 3' -56.6 NC_005045.1 + 8863 0.68 0.45157
Target:  5'- uACGcCGaGAaaauCGGugGCGACUCCgAGCUGa -3'
miRNA:   3'- -UGCaGC-CU----GUCugCGUUGAGG-UCGGC- -5'
22355 3' -56.6 NC_005045.1 + 31788 0.74 0.209882
Target:  5'- uCGUCGGACGcuggggcGAUGC-GCUCCAGCuCGa -3'
miRNA:   3'- uGCAGCCUGU-------CUGCGuUGAGGUCG-GC- -5'
22355 3' -56.6 NC_005045.1 + 18819 0.76 0.147662
Target:  5'- aGCGggcaCGG-CAGGCGCAGCUCC-GCCa -3'
miRNA:   3'- -UGCa---GCCuGUCUGCGUUGAGGuCGGc -5'
22355 3' -56.6 NC_005045.1 + 20553 0.66 0.577689
Target:  5'- gGCcUUGGACGGAUGCAcuuGCUCCuauGUgGg -3'
miRNA:   3'- -UGcAGCCUGUCUGCGU---UGAGGu--CGgC- -5'
22355 3' -56.6 NC_005045.1 + 32241 0.66 0.577689
Target:  5'- cACGUCGGcCcc-UGCGGCaUCCAGCCc -3'
miRNA:   3'- -UGCAGCCuGucuGCGUUG-AGGUCGGc -5'
22355 3' -56.6 NC_005045.1 + 26535 0.67 0.534311
Target:  5'- -aGUUGGGCAGAgUGU-ACUCCGGCg- -3'
miRNA:   3'- ugCAGCCUGUCU-GCGuUGAGGUCGgc -5'
22355 3' -56.6 NC_005045.1 + 18773 0.67 0.523638
Target:  5'- -gGUCGcGGCGGcgccaGCAucacGCUCCGGCCa -3'
miRNA:   3'- ugCAGC-CUGUCug---CGU----UGAGGUCGGc -5'
22355 3' -56.6 NC_005045.1 + 7095 0.69 0.376341
Target:  5'- uCG-CGGugGGugGU-GCUCCAGCCc -3'
miRNA:   3'- uGCaGCCugUCugCGuUGAGGUCGGc -5'
22355 3' -56.6 NC_005045.1 + 33233 0.71 0.317031
Target:  5'- --cUCGGACgccgccaGGACGCGGCUCagGGCCGu -3'
miRNA:   3'- ugcAGCCUG-------UCUGCGUUGAGg-UCGGC- -5'
22355 3' -56.6 NC_005045.1 + 9698 0.72 0.253007
Target:  5'- uGCGUCGG-CGuacuCGguACUCCAGCCa -3'
miRNA:   3'- -UGCAGCCuGUcu--GCguUGAGGUCGGc -5'
22355 3' -56.6 NC_005045.1 + 17496 0.66 0.599683
Target:  5'- gUGUUGcGAguGuauCGCccacGACUCCAGCCGc -3'
miRNA:   3'- uGCAGC-CUguCu--GCG----UUGAGGUCGGC- -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.