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
7272 3' -55.5 NC_001900.1 + 2641 0.66 0.698127
Target:  5'- cGCCGUCGGGCuacGCCC-----UCAGCGg -3'
miRNA:   3'- cUGGCAGCUCG---CGGGucuguAGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 18667 0.66 0.698127
Target:  5'- cGGCCGUgCG-GCGCUgCAGGCG-CAGCu -3'
miRNA:   3'- -CUGGCA-GCuCGCGG-GUCUGUaGUUGc -5'
7272 3' -55.5 NC_001900.1 + 3030 0.66 0.698127
Target:  5'- cGACCGgcgaCGGGUccGCCUGGAgAUCgAGCGg -3'
miRNA:   3'- -CUGGCa---GCUCG--CGGGUCUgUAG-UUGC- -5'
7272 3' -55.5 NC_001900.1 + 33588 0.66 0.698127
Target:  5'- aGAUCGUgGAGCccuugaucaGCCCAGAgAaccucugcagaUCGGCGg -3'
miRNA:   3'- -CUGGCAgCUCG---------CGGGUCUgU-----------AGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 29408 0.66 0.698127
Target:  5'- cGAUCucgCGAGCGCCCcaguuGGCcuucUCAGCGg -3'
miRNA:   3'- -CUGGca-GCUCGCGGGu----CUGu---AGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 36041 0.66 0.676304
Target:  5'- uGCUgGUCGAGCacCCCGGGCugcgCGACGa -3'
miRNA:   3'- cUGG-CAGCUCGc-GGGUCUGua--GUUGC- -5'
7272 3' -55.5 NC_001900.1 + 2536 0.66 0.665324
Target:  5'- --aCGUCGguGGCaGCCCGGACG-CAGCc -3'
miRNA:   3'- cugGCAGC--UCG-CGGGUCUGUaGUUGc -5'
7272 3' -55.5 NC_001900.1 + 5605 0.66 0.665324
Target:  5'- aGCUGUCGGagcuGCGCUgggCAGGCAUCggUGc -3'
miRNA:   3'- cUGGCAGCU----CGCGG---GUCUGUAGuuGC- -5'
7272 3' -55.5 NC_001900.1 + 30810 0.67 0.621195
Target:  5'- cACCgGUCGAGCaCCUGGAgGUCGuACGa -3'
miRNA:   3'- cUGG-CAGCUCGcGGGUCUgUAGU-UGC- -5'
7272 3' -55.5 NC_001900.1 + 27151 0.67 0.617884
Target:  5'- cGACCGacaucagCGAcgagaggaucagcaGCGCCCAGGCGUacCAACc -3'
miRNA:   3'- -CUGGCa------GCU--------------CGCGGGUCUGUA--GUUGc -5'
7272 3' -55.5 NC_001900.1 + 13632 0.68 0.577215
Target:  5'- uGCCGacaUGAGCGCCagcGACGuUCAGCGg -3'
miRNA:   3'- cUGGCa--GCUCGCGGgu-CUGU-AGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 3616 0.68 0.555463
Target:  5'- aGGCCGUuaccggcccCGAGCGCC---GCGUCGAUGg -3'
miRNA:   3'- -CUGGCA---------GCUCGCGGgucUGUAGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 43040 0.68 0.544676
Target:  5'- aGCCGggGAGCGuCCCGGuACAUCGGg- -3'
miRNA:   3'- cUGGCagCUCGC-GGGUC-UGUAGUUgc -5'
7272 3' -55.5 NC_001900.1 + 21160 0.68 0.533957
Target:  5'- uGGCCGguggacaGucCGCuCCGGGCAUCAACGa -3'
miRNA:   3'- -CUGGCag-----CucGCG-GGUCUGUAGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 8237 0.7 0.422332
Target:  5'- cGACCGUCucGGUGCCgGGAUGUgGGCGu -3'
miRNA:   3'- -CUGGCAGc-UCGCGGgUCUGUAgUUGC- -5'
7272 3' -55.5 NC_001900.1 + 38461 0.72 0.32593
Target:  5'- cGACCGUCGGGauCCCGcACAgcUCAGCGg -3'
miRNA:   3'- -CUGGCAGCUCgcGGGUcUGU--AGUUGC- -5'
7272 3' -55.5 NC_001900.1 + 5650 1.08 0.001097
Target:  5'- gGACCGUCGAGCGCCCAGACAUCAACGc -3'
miRNA:   3'- -CUGGCAGCUCGCGGGUCUGUAGUUGC- -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.