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
9459 3' -52.6 NC_002531.1 + 34085 0.66 0.947055
Target:  5'- uAGugGUGCUcuGGCCGGggGUAUGGCc -3'
miRNA:   3'- uUUugUAUGG--UCGGUCgaCGUACCGa -5'
9459 3' -52.6 NC_002531.1 + 16479 0.66 0.942296
Target:  5'- uAAACA-AUgGGCUAGCUGCAcguugGGCg -3'
miRNA:   3'- uUUUGUaUGgUCGGUCGACGUa----CCGa -5'
9459 3' -52.6 NC_002531.1 + 125111 0.66 0.942296
Target:  5'- aGAGACAuguUugCAGUCucaggGGCUGguUGGCa -3'
miRNA:   3'- -UUUUGU---AugGUCGG-----UCGACguACCGa -5'
9459 3' -52.6 NC_002531.1 + 121325 0.66 0.940316
Target:  5'- cGAACAgaUGCCGGCCAcGCUGCuguucccggaagGGUUu -3'
miRNA:   3'- uUUUGU--AUGGUCGGU-CGACGua----------CCGA- -5'
9459 3' -52.6 NC_002531.1 + 74647 0.66 0.937267
Target:  5'- aGAGACAguggACUuguaAGCCAGCaGCA-GGCa -3'
miRNA:   3'- -UUUUGUa---UGG----UCGGUCGaCGUaCCGa -5'
9459 3' -52.6 NC_002531.1 + 37595 0.66 0.936749
Target:  5'- -cAACA-ACCAGCUAGCUccaaccaGgGUGGCg -3'
miRNA:   3'- uuUUGUaUGGUCGGUCGA-------CgUACCGa -5'
9459 3' -52.6 NC_002531.1 + 116826 0.67 0.914427
Target:  5'- ---uCAUACCAGCCA-CUGgGUGGa- -3'
miRNA:   3'- uuuuGUAUGGUCGGUcGACgUACCga -5'
9459 3' -52.6 NC_002531.1 + 57933 0.67 0.900697
Target:  5'- uGGACAUugagcugGCCGuCCAGCggcGCGUGGCg -3'
miRNA:   3'- uUUUGUA-------UGGUcGGUCGa--CGUACCGa -5'
9459 3' -52.6 NC_002531.1 + 42309 0.68 0.887266
Target:  5'- aAAGACc--CCAGCCAauGCUGCuAUGGUa -3'
miRNA:   3'- -UUUUGuauGGUCGGU--CGACG-UACCGa -5'
9459 3' -52.6 NC_002531.1 + 24744 0.68 0.88506
Target:  5'- uAAGCA-ACCAGCCagugaAGCUGCgcaccugugaaccaGUGGCa -3'
miRNA:   3'- uUUUGUaUGGUCGG-----UCGACG--------------UACCGa -5'
9459 3' -52.6 NC_002531.1 + 4360 0.69 0.847593
Target:  5'- uGGACAaACUguGGCCGG-UGCAUGGCg -3'
miRNA:   3'- uUUUGUaUGG--UCGGUCgACGUACCGa -5'
9459 3' -52.6 NC_002531.1 + 103871 0.69 0.838958
Target:  5'- -uAACA-GCgGGUCAGCUGCA-GGCUc -3'
miRNA:   3'- uuUUGUaUGgUCGGUCGACGUaCCGA- -5'
9459 3' -52.6 NC_002531.1 + 25127 0.69 0.821053
Target:  5'- -uGAguUACUGGUCuGCUGCAUGGUg -3'
miRNA:   3'- uuUUguAUGGUCGGuCGACGUACCGa -5'
9459 3' -52.6 NC_002531.1 + 90997 0.72 0.689335
Target:  5'- cAGAACcc-CCGGCCAGUgaGCGUGGCg -3'
miRNA:   3'- -UUUUGuauGGUCGGUCGa-CGUACCGa -5'
9459 3' -52.6 NC_002531.1 + 14405 0.76 0.455442
Target:  5'- gAAAACAUucuggagaaGCUAGaCCAGCUGCGUGaGCUg -3'
miRNA:   3'- -UUUUGUA---------UGGUC-GGUCGACGUAC-CGA- -5'
9459 3' -52.6 NC_002531.1 + 40570 0.8 0.270929
Target:  5'- cGGGGCuUACCAGUUAGCUgGCAUGGCUa -3'
miRNA:   3'- -UUUUGuAUGGUCGGUCGA-CGUACCGA- -5'
9459 3' -52.6 NC_002531.1 + 123174 1.06 0.005055
Target:  5'- gAAAACAUACCAGCCAGCUGCAUGGCUg -3'
miRNA:   3'- -UUUUGUAUGGUCGGUCGACGUACCGA- -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.