miRNA display CGI


Results 1 - 20 of 21 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
13373 3' -54.5 NC_003409.1 + 39985 0.66 0.937492
Target:  5'- aGGCCGCgucuauguucuACAUgauuGGaCUCAG--GCGGCCGa -3'
miRNA:   3'- -CCGGCG-----------UGUA----UC-GAGUUagUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 25732 0.66 0.937492
Target:  5'- uGGgCGCGCAUAGgUCGGU-ACGcGCUg -3'
miRNA:   3'- -CCgGCGUGUAUCgAGUUAgUGC-CGGu -5'
13373 3' -54.5 NC_003409.1 + 110270 0.66 0.937492
Target:  5'- cGGCCagggagGCGaAUGGCUCGcgAUCugGGCa- -3'
miRNA:   3'- -CCGG------CGUgUAUCGAGU--UAGugCCGgu -5'
13373 3' -54.5 NC_003409.1 + 22592 0.66 0.921573
Target:  5'- uGGCCGUGauugAGCUaug-UGCGGCCAg -3'
miRNA:   3'- -CCGGCGUgua-UCGAguuaGUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 18516 0.66 0.915767
Target:  5'- gGGCggCGCACAUGGCuuUCGAUuccCGCGGgCu -3'
miRNA:   3'- -CCG--GCGUGUAUCG--AGUUA---GUGCCgGu -5'
13373 3' -54.5 NC_003409.1 + 128326 0.66 0.909712
Target:  5'- uGGCUGUACGUGGCgacguUUACGGgaCCGg -3'
miRNA:   3'- -CCGGCGUGUAUCGaguu-AGUGCC--GGU- -5'
13373 3' -54.5 NC_003409.1 + 38189 0.67 0.896864
Target:  5'- uGGCCGcCACAcaaaUAGCUCGcguGUCcgccacgaaguUGGCCAg -3'
miRNA:   3'- -CCGGC-GUGU----AUCGAGU---UAGu----------GCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 41010 0.67 0.892821
Target:  5'- aGGCUGCccguacacuuuagaaAuCGUGGCU--GUCGCGGCCu -3'
miRNA:   3'- -CCGGCG---------------U-GUAUCGAguUAGUGCCGGu -5'
13373 3' -54.5 NC_003409.1 + 61530 0.67 0.883052
Target:  5'- cGGUgCGCaACAgGGCUUcuagauUCACGGCCAc -3'
miRNA:   3'- -CCG-GCG-UGUaUCGAGuu----AGUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 40706 0.68 0.841236
Target:  5'- aGGCUGCAC-UGGCgccaccgaACGGCCGc -3'
miRNA:   3'- -CCGGCGUGuAUCGaguuag--UGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 27267 0.68 0.836212
Target:  5'- cGGCUGCcugcCAUAGCUUAG--ACGGUCGa -3'
miRNA:   3'- -CCGGCGu---GUAUCGAGUUagUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 68205 0.68 0.827684
Target:  5'- gGGCCGCguGCGcAGUUCAAcggaCACGGCgGa -3'
miRNA:   3'- -CCGGCG--UGUaUCGAGUUa---GUGCCGgU- -5'
13373 3' -54.5 NC_003409.1 + 68507 0.68 0.827684
Target:  5'- aGGCCGCGCGgcuauGCUgGAccCACGGUg- -3'
miRNA:   3'- -CCGGCGUGUau---CGAgUUa-GUGCCGgu -5'
13373 3' -54.5 NC_003409.1 + 72398 0.69 0.801016
Target:  5'- aGCCGUACcUGGUUCc--CGCGGCUAg -3'
miRNA:   3'- cCGGCGUGuAUCGAGuuaGUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 53461 0.69 0.801016
Target:  5'- uGGUCGCACcUGGUaagCAGg-GCGGCCAc -3'
miRNA:   3'- -CCGGCGUGuAUCGa--GUUagUGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 108609 0.69 0.791796
Target:  5'- cGCCGUGCGUAGC-----CGCGGCCu -3'
miRNA:   3'- cCGGCGUGUAUCGaguuaGUGCCGGu -5'
13373 3' -54.5 NC_003409.1 + 113804 0.71 0.703192
Target:  5'- cGGUCGCGC-UGGUgagaaGGUCAUGGCCc -3'
miRNA:   3'- -CCGGCGUGuAUCGag---UUAGUGCCGGu -5'
13373 3' -54.5 NC_003409.1 + 113948 0.71 0.703192
Target:  5'- cGGCCGCACAgGGUggugcCGGUUuucccaccaACGGCCGc -3'
miRNA:   3'- -CCGGCGUGUaUCGa----GUUAG---------UGCCGGU- -5'
13373 3' -54.5 NC_003409.1 + 113565 0.71 0.672175
Target:  5'- uGuuGCGCGUGGCUCAGaCACcgucGCCAa -3'
miRNA:   3'- cCggCGUGUAUCGAGUUaGUGc---CGGU- -5'
13373 3' -54.5 NC_003409.1 + 80533 0.73 0.609458
Target:  5'- uGGCCGCACugcgaGGUUcCGAUgACGGUCAg -3'
miRNA:   3'- -CCGGCGUGua---UCGA-GUUAgUGCCGGU- -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.