miRNA display CGI


Results 1 - 20 of 22 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
7330 3' -55.6 NC_001900.1 + 23057 0.66 0.666547
Target:  5'- cCGAGgGCCUGcagcagcauGUCCACGAuggUCUGGa- -3'
miRNA:   3'- aGCUUgUGGAC---------CAGGUGCU---GGACCaa -5'
7330 3' -55.6 NC_001900.1 + 961 0.66 0.666547
Target:  5'- gCGAcuGCugCUGGcCUACGGCCggcugcGGUa -3'
miRNA:   3'- aGCU--UGugGACCaGGUGCUGGa-----CCAa -5'
7330 3' -55.6 NC_001900.1 + 14037 0.66 0.644335
Target:  5'- cCGAcguACcggaCUGGUUgGCGACCUGGa- -3'
miRNA:   3'- aGCU---UGug--GACCAGgUGCUGGACCaa -5'
7330 3' -55.6 NC_001900.1 + 1557 0.66 0.622077
Target:  5'- aCGaAGCACCUGGacaagcUCCugGACUcGGg- -3'
miRNA:   3'- aGC-UUGUGGACC------AGGugCUGGaCCaa -5'
7330 3' -55.6 NC_001900.1 + 6926 0.67 0.610956
Target:  5'- cUUGAGCACCUGGccaaCCACGAuggcucCCUGcGa- -3'
miRNA:   3'- -AGCUUGUGGACCa---GGUGCU------GGAC-Caa -5'
7330 3' -55.6 NC_001900.1 + 30042 0.67 0.566754
Target:  5'- aUCGAcauGCGCgaGGUCCGCG-CCUGc-- -3'
miRNA:   3'- -AGCU---UGUGgaCCAGGUGCuGGACcaa -5'
7330 3' -55.6 NC_001900.1 + 24724 0.67 0.566754
Target:  5'- aUCG-GCGCUggUGGUaCCGCagGGCCUGGUUa -3'
miRNA:   3'- -AGCuUGUGG--ACCA-GGUG--CUGGACCAA- -5'
7330 3' -55.6 NC_001900.1 + 15306 0.67 0.555818
Target:  5'- cCGAACGCC---UCCACGACCcccGGUg -3'
miRNA:   3'- aGCUUGUGGaccAGGUGCUGGa--CCAa -5'
7330 3' -55.6 NC_001900.1 + 11173 0.67 0.555818
Target:  5'- -gGAACGaggCUGG-CCGCGAUCUGGa- -3'
miRNA:   3'- agCUUGUg--GACCaGGUGCUGGACCaa -5'
7330 3' -55.6 NC_001900.1 + 29691 0.68 0.544943
Target:  5'- gUCGAAC-CC--GUCCACGACCUGc-- -3'
miRNA:   3'- -AGCUUGuGGacCAGGUGCUGGACcaa -5'
7330 3' -55.6 NC_001900.1 + 1483 0.68 0.512768
Target:  5'- cCGAGCAUCUGGUCCcucuucgcuauGCG-CUUGGc- -3'
miRNA:   3'- aGCUUGUGGACCAGG-----------UGCuGGACCaa -5'
7330 3' -55.6 NC_001900.1 + 14304 0.69 0.471152
Target:  5'- gCGGACaucgacguGCCUGG-CCGCGACCUuGUUc -3'
miRNA:   3'- aGCUUG--------UGGACCaGGUGCUGGAcCAA- -5'
7330 3' -55.6 NC_001900.1 + 5149 0.69 0.470133
Target:  5'- aCGAcggcgcacGCGCCUGGaacgacccgcucuUCCACGACUucUGGUa -3'
miRNA:   3'- aGCU--------UGUGGACC-------------AGGUGCUGG--ACCAa -5'
7330 3' -55.6 NC_001900.1 + 4426 0.69 0.461015
Target:  5'- aUCGGuaagACGCCUGGcUCugGACCaGGUa -3'
miRNA:   3'- -AGCU----UGUGGACCaGGugCUGGaCCAa -5'
7330 3' -55.6 NC_001900.1 + 41176 0.69 0.461015
Target:  5'- aUCGAG-ACCaaGGUCCACGGCCgcaGGUc -3'
miRNA:   3'- -AGCUUgUGGa-CCAGGUGCUGGa--CCAa -5'
7330 3' -55.6 NC_001900.1 + 24552 0.7 0.412156
Target:  5'- gUCGAACG-CUGG-CCAC-ACCUGGUc -3'
miRNA:   3'- -AGCUUGUgGACCaGGUGcUGGACCAa -5'
7330 3' -55.6 NC_001900.1 + 6482 0.71 0.366631
Target:  5'- gCGAGCACCUGcUCgACGccCCUGGUg -3'
miRNA:   3'- aGCUUGUGGACcAGgUGCu-GGACCAa -5'
7330 3' -55.6 NC_001900.1 + 40860 0.72 0.316742
Target:  5'- aCGAgcuGCACC-GGUCCccguAUGGCCUGGUg -3'
miRNA:   3'- aGCU---UGUGGaCCAGG----UGCUGGACCAa -5'
7330 3' -55.6 NC_001900.1 + 44562 0.73 0.272142
Target:  5'- aUCGAGCGCC-GGUacaCCGuCGGCCUGGa- -3'
miRNA:   3'- -AGCUUGUGGaCCA---GGU-GCUGGACCaa -5'
7330 3' -55.6 NC_001900.1 + 33714 0.73 0.265219
Target:  5'- -aGAGCGCCUGGaacgCCAgGAgCUGGUg -3'
miRNA:   3'- agCUUGUGGACCa---GGUgCUgGACCAa -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.