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
17626 3' -54.3 NC_004466.2 + 25052 0.66 0.719629
Target:  5'- aCCGGuAUCACgaaGUUUggaacGCCCUagCAGCCCu -3'
miRNA:   3'- aGGUC-UAGUGg--UAGA-----UGGGA--GUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 36130 0.66 0.719629
Target:  5'- aUCCGuGGcCACuCAUCggaACCCUCcAGCUCa -3'
miRNA:   3'- -AGGU-CUaGUG-GUAGa--UGGGAG-UCGGG- -5'
17626 3' -54.3 NC_004466.2 + 17244 0.66 0.708685
Target:  5'- gCCuguuGggCACCAgagguaacACCCUCAGCCa -3'
miRNA:   3'- aGGu---CuaGUGGUaga-----UGGGAGUCGGg -5'
17626 3' -54.3 NC_004466.2 + 6022 0.66 0.686573
Target:  5'- cCCGGAUCGCU-UCUggacuaacccuaACUCUCccgaGGCCCu -3'
miRNA:   3'- aGGUCUAGUGGuAGA------------UGGGAG----UCGGG- -5'
17626 3' -54.3 NC_004466.2 + 32308 0.67 0.675429
Target:  5'- cUCCAGggCGCUAcCU-CCUUCguccaGGCCCg -3'
miRNA:   3'- -AGGUCuaGUGGUaGAuGGGAG-----UCGGG- -5'
17626 3' -54.3 NC_004466.2 + 35258 0.67 0.664243
Target:  5'- cCCAGGUUGCUuacCUcACCCggAGCCCu -3'
miRNA:   3'- aGGUCUAGUGGua-GA-UGGGagUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 14812 0.67 0.664243
Target:  5'- uUCCuGAUCGuguCCGUCgugcUGCUCaggCAGCCCu -3'
miRNA:   3'- -AGGuCUAGU---GGUAG----AUGGGa--GUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 20214 0.68 0.574527
Target:  5'- -aCGGAuaUCACCGUg-ACCUUgGGCCCu -3'
miRNA:   3'- agGUCU--AGUGGUAgaUGGGAgUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 38272 0.68 0.574527
Target:  5'- cCCGGAggaccCAUCAUCaaUGCCCUgcggaUGGCCCa -3'
miRNA:   3'- aGGUCUa----GUGGUAG--AUGGGA-----GUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 17805 0.7 0.487845
Target:  5'- aCCGccUCgACCA-CUAgCCUCAGCCCu -3'
miRNA:   3'- aGGUcuAG-UGGUaGAUgGGAGUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 317 0.7 0.47742
Target:  5'- cCCAGGUgGCCGUC-ACCUgauggguGCCCa -3'
miRNA:   3'- aGGUCUAgUGGUAGaUGGGagu----CGGG- -5'
17626 3' -54.3 NC_004466.2 + 40798 0.7 0.446834
Target:  5'- -aCGGGUCGCCGaccgC-AUCCUCAGCCg -3'
miRNA:   3'- agGUCUAGUGGUa---GaUGGGAGUCGGg -5'
17626 3' -54.3 NC_004466.2 + 36679 0.73 0.328267
Target:  5'- aCCGGGuaucgUCGCCAUCU-UCCUCGguGCCCu -3'
miRNA:   3'- aGGUCU-----AGUGGUAGAuGGGAGU--CGGG- -5'
17626 3' -54.3 NC_004466.2 + 4805 0.73 0.304428
Target:  5'- aUCCAGAU-ACC-UCUAUCCU-GGCCCa -3'
miRNA:   3'- -AGGUCUAgUGGuAGAUGGGAgUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 3702 0.75 0.247421
Target:  5'- aCCAGAgccgagCAUaggaaUACCCUCAGCCCu -3'
miRNA:   3'- aGGUCUa-----GUGguag-AUGGGAGUCGGG- -5'
17626 3' -54.3 NC_004466.2 + 12738 0.76 0.216475
Target:  5'- gCCAGAUCACuUAUCcaccACCCUCAGauCCCa -3'
miRNA:   3'- aGGUCUAGUG-GUAGa---UGGGAGUC--GGG- -5'
17626 3' -54.3 NC_004466.2 + 38861 1.12 0.000556
Target:  5'- uUCCAGAUCACCAUCUACCCUCAGCCCu -3'
miRNA:   3'- -AGGUCUAGUGGUAGAUGGGAGUCGGG- -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.