miRNA display CGI


Results 1 - 12 of 12 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
20017 5' -52.3 NC_004687.1 + 37488 0.66 0.98826
Target:  5'- aGUCCAUCGG-GUgCCGGAugcacUCgccGUCGa -3'
miRNA:   3'- -CAGGUAGCCaCAgGGCUU-----AGac-UAGC- -5'
20017 5' -52.3 NC_004687.1 + 120454 0.66 0.98826
Target:  5'- cGUCCuacCGGUG---CGGAUCUGGUCGc -3'
miRNA:   3'- -CAGGua-GCCACaggGCUUAGACUAGC- -5'
20017 5' -52.3 NC_004687.1 + 124689 0.67 0.976518
Target:  5'- -gCCGUgGGUGUCgUCGGcgUUGAUCa -3'
miRNA:   3'- caGGUAgCCACAG-GGCUuaGACUAGc -5'
20017 5' -52.3 NC_004687.1 + 90462 0.67 0.976518
Target:  5'- uGUCCugGUCGGUGUgcucgaugucggCCCaGGcgCUGAUCu -3'
miRNA:   3'- -CAGG--UAGCCACA------------GGG-CUuaGACUAGc -5'
20017 5' -52.3 NC_004687.1 + 137503 0.69 0.930925
Target:  5'- -cCCAUCGGUGgUCCGGA--UGAUCa -3'
miRNA:   3'- caGGUAGCCACaGGGCUUagACUAGc -5'
20017 5' -52.3 NC_004687.1 + 16868 0.69 0.925584
Target:  5'- cGUCgGUggCGGUGUCCagCGGG-CUGAUCGg -3'
miRNA:   3'- -CAGgUA--GCCACAGG--GCUUaGACUAGC- -5'
20017 5' -52.3 NC_004687.1 + 2308 0.7 0.888404
Target:  5'- cGUUCGUUGGU-UCCCGAGU-UGAUCGc -3'
miRNA:   3'- -CAGGUAGCCAcAGGGCUUAgACUAGC- -5'
20017 5' -52.3 NC_004687.1 + 66959 0.71 0.874112
Target:  5'- aUCCAccagUCGGUGcCCCGGAUCggcagggcgccGGUCGa -3'
miRNA:   3'- cAGGU----AGCCACaGGGCUUAGa----------CUAGC- -5'
20017 5' -52.3 NC_004687.1 + 127527 0.71 0.858928
Target:  5'- -gCCAgagaaCGGUGUgCCGAgaucgGUCUGGUCGu -3'
miRNA:   3'- caGGUa----GCCACAgGGCU-----UAGACUAGC- -5'
20017 5' -52.3 NC_004687.1 + 149692 0.71 0.851015
Target:  5'- cGUCCAgauggguuugCGGUGcuugCCCGGgccgAUCUGGUCGc -3'
miRNA:   3'- -CAGGUa---------GCCACa---GGGCU----UAGACUAGC- -5'
20017 5' -52.3 NC_004687.1 + 127676 0.73 0.799504
Target:  5'- uGUCCggGUCGGUGUCgCCGAG-CUcGAUCu -3'
miRNA:   3'- -CAGG--UAGCCACAG-GGCUUaGA-CUAGc -5'
20017 5' -52.3 NC_004687.1 + 18453 1.1 0.006296
Target:  5'- cGUCCAUCGGUGUCCCGAAUCUGAUCGa -3'
miRNA:   3'- -CAGGUAGCCACAGGGCUUAGACUAGC- -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.