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
23251 3' -54.4 NC_005259.1 + 67404 0.66 0.804341
Target:  5'- gGUGUCAcgGGCCGacaccaUCGGGG--UGCCGg -3'
miRNA:   3'- -CACGGUaaCCGGU------AGCCCUguAUGGU- -5'
23251 3' -54.4 NC_005259.1 + 27965 0.66 0.804341
Target:  5'- cUGUCAgcgUGGCCAauguuccucccUUGGGugGUGCgGg -3'
miRNA:   3'- cACGGUa--ACCGGU-----------AGCCCugUAUGgU- -5'
23251 3' -54.4 NC_005259.1 + 53633 0.66 0.801461
Target:  5'- gGUGCCGUUGGCCgcuuccugcacguuGUaCGGGcCGagGCCc -3'
miRNA:   3'- -CACGGUAACCGG--------------UA-GCCCuGUa-UGGu -5'
23251 3' -54.4 NC_005259.1 + 26807 0.66 0.784846
Target:  5'- -cGCCcgGUUGGCCGguacCGGcgGugGUGCCGg -3'
miRNA:   3'- caCGG--UAACCGGUa---GCC--CugUAUGGU- -5'
23251 3' -54.4 NC_005259.1 + 53516 0.66 0.784846
Target:  5'- cGUGCUcgUGGCCAgcggcaCGGGcucgGUGCCc -3'
miRNA:   3'- -CACGGuaACCGGUa-----GCCCug--UAUGGu -5'
23251 3' -54.4 NC_005259.1 + 5706 0.67 0.754435
Target:  5'- cGUGCCGccaaGGCCAgcgCcGGACGgcgGCCAu -3'
miRNA:   3'- -CACGGUaa--CCGGUa--GcCCUGUa--UGGU- -5'
23251 3' -54.4 NC_005259.1 + 15099 0.67 0.744032
Target:  5'- -cGCCGcagGGCCAUCGaguGGACcuuggACCAu -3'
miRNA:   3'- caCGGUaa-CCGGUAGC---CCUGua---UGGU- -5'
23251 3' -54.4 NC_005259.1 + 54488 0.67 0.744032
Target:  5'- -cGCCGagGGUCAUCGGcgGGCAUGgCGg -3'
miRNA:   3'- caCGGUaaCCGGUAGCC--CUGUAUgGU- -5'
23251 3' -54.4 NC_005259.1 + 38676 0.68 0.701398
Target:  5'- -cGCUGUUGGCCGcCGGGuCGagguugGCCAc -3'
miRNA:   3'- caCGGUAACCGGUaGCCCuGUa-----UGGU- -5'
23251 3' -54.4 NC_005259.1 + 9146 0.68 0.690542
Target:  5'- cGUGCUcgUGcCCGUCGacGGCAUGCCGg -3'
miRNA:   3'- -CACGGuaACcGGUAGCc-CUGUAUGGU- -5'
23251 3' -54.4 NC_005259.1 + 36154 0.68 0.66867
Target:  5'- -cGCCA-UGGCCA-CGGuGACGaccuUGCCGa -3'
miRNA:   3'- caCGGUaACCGGUaGCC-CUGU----AUGGU- -5'
23251 3' -54.4 NC_005259.1 + 15556 0.68 0.666474
Target:  5'- gGUGCCAcccucaggUGGCCAcccUCGGGGCcagcgcgacggGCCGc -3'
miRNA:   3'- -CACGGUa-------ACCGGU---AGCCCUGua---------UGGU- -5'
23251 3' -54.4 NC_005259.1 + 60525 0.71 0.516098
Target:  5'- -cGCCA-UGGCCGggcCGGGACGcaGCCGc -3'
miRNA:   3'- caCGGUaACCGGUa--GCCCUGUa-UGGU- -5'
23251 3' -54.4 NC_005259.1 + 39359 0.71 0.505607
Target:  5'- cGUGCCg--GGCCucGUCGGGaACGUcCCAg -3'
miRNA:   3'- -CACGGuaaCCGG--UAGCCC-UGUAuGGU- -5'
23251 3' -54.4 NC_005259.1 + 19556 0.72 0.435053
Target:  5'- aUGCCcgcaGCCGUCGGGACAgcGCCGc -3'
miRNA:   3'- cACGGuaacCGGUAGCCCUGUa-UGGU- -5'
23251 3' -54.4 NC_005259.1 + 13732 0.77 0.224365
Target:  5'- gGUGCCGUgaUGGCCcgCGaGAUAUGCCAa -3'
miRNA:   3'- -CACGGUA--ACCGGuaGCcCUGUAUGGU- -5'
23251 3' -54.4 NC_005259.1 + 37430 1.09 0.00146
Target:  5'- cGUGCCAUUGGCCAUCGGGACAUACCAu -3'
miRNA:   3'- -CACGGUAACCGGUAGCCCUGUAUGGU- -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.