miRNA display CGI


Results 1 - 16 of 16 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
13246 3' -55.6 NC_003401.1 + 9238 0.66 0.888112
Target:  5'- cGUGGACUaucgaggacgcggGUGCCcuaauAGAGGAuCGCCAg -3'
miRNA:   3'- uCACCUGGga-----------UACGG-----UCUUCU-GCGGU- -5'
13246 3' -55.6 NC_003401.1 + 22819 0.66 0.878145
Target:  5'- aGGcGGGCCCgg-GCCGcGGguauuaauGGACGCCGu -3'
miRNA:   3'- -UCaCCUGGGauaCGGU-CU--------UCUGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 998 0.66 0.878145
Target:  5'- -cUGGccaGCCCUAUGCUuugugccuggGGGAGAgGCCc -3'
miRNA:   3'- ucACC---UGGGAUACGG----------UCUUCUgCGGu -5'
13246 3' -55.6 NC_003401.1 + 125403 0.66 0.863133
Target:  5'- gGGUGGGCCaacgGCCGGuaccuGGGCGUgAg -3'
miRNA:   3'- -UCACCUGGgauaCGGUCu----UCUGCGgU- -5'
13246 3' -55.6 NC_003401.1 + 125742 0.66 0.863133
Target:  5'- cGGUGGACCgUggGCaucGAAGACaGCUAc -3'
miRNA:   3'- -UCACCUGGgAuaCGgu-CUUCUG-CGGU- -5'
13246 3' -55.6 NC_003401.1 + 132294 0.67 0.839006
Target:  5'- --cGGGCCCgcgcGCCGGgcGcCGCCGg -3'
miRNA:   3'- ucaCCUGGGaua-CGGUCuuCuGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 20558 0.67 0.833963
Target:  5'- cAGUGGGCCggcaaccgcgccucuCUugacagGaCCAGggGGCGCCu -3'
miRNA:   3'- -UCACCUGG---------------GAua----C-GGUCuuCUGCGGu -5'
13246 3' -55.6 NC_003401.1 + 132473 0.68 0.785696
Target:  5'- --aGGGCCggGaGCCGGggGAgGCCGg -3'
miRNA:   3'- ucaCCUGGgaUaCGGUCuuCUgCGGU- -5'
13246 3' -55.6 NC_003401.1 + 124379 0.68 0.776255
Target:  5'- gAGUGGAU---AUGCUAcGAAGAUGCCGg -3'
miRNA:   3'- -UCACCUGggaUACGGU-CUUCUGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 132686 0.68 0.776255
Target:  5'- uGUgGGGCCCcggGcCCGGggGGCGUCGg -3'
miRNA:   3'- uCA-CCUGGGauaC-GGUCuuCUGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 105782 0.69 0.737245
Target:  5'- -uUGGACCCgcggGCCAaAGGugGUCAg -3'
miRNA:   3'- ucACCUGGGaua-CGGUcUUCugCGGU- -5'
13246 3' -55.6 NC_003401.1 + 74638 0.69 0.737245
Target:  5'- uAG-GGuACCCgcgggGUGCCAGGAGACGg-- -3'
miRNA:   3'- -UCaCC-UGGGa----UACGGUCUUCUGCggu -5'
13246 3' -55.6 NC_003401.1 + 49918 0.7 0.696712
Target:  5'- cGUGGGCCCUcauucgccUGCCGGAuuuaGCCAg -3'
miRNA:   3'- uCACCUGGGAu-------ACGGUCUucugCGGU- -5'
13246 3' -55.6 NC_003401.1 + 95193 0.73 0.491472
Target:  5'- cAGUGGcACCUguuugcGCCAGAGGugGCGCCAa -3'
miRNA:   3'- -UCACC-UGGGaua---CGGUCUUC--UGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 83905 0.73 0.491472
Target:  5'- cGUGuGAUCCaGUGCCAGA--ACGCCAa -3'
miRNA:   3'- uCAC-CUGGGaUACGGUCUucUGCGGU- -5'
13246 3' -55.6 NC_003401.1 + 107598 1.08 0.00274
Target:  5'- aAGUGGACCCUAUGCCAGAAGACGCCAc -3'
miRNA:   3'- -UCACCUGGGAUACGGUCUUCUGCGGU- -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.