miRNA display CGI


Results 1 - 20 of 23 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
20080 3' -53.2 NC_004687.1 + 150441 0.66 0.973272
Target:  5'- cGUAGGCCCAGaagacGUcgccgUCCUCgucuucgaucauCUCGAAGc -3'
miRNA:   3'- uCAUCCGGGUU-----CA-----AGGAG------------GAGCUUCu -5'
20080 3' -53.2 NC_004687.1 + 137678 0.66 0.970417
Target:  5'- aGGUAcuucauGGCUCAGGccUCCUUCUCGucGAu -3'
miRNA:   3'- -UCAU------CCGGGUUCa-AGGAGGAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 51874 0.66 0.970417
Target:  5'- aAGUAgGGCCCGgccugGGcgCCUCCUCa---- -3'
miRNA:   3'- -UCAU-CCGGGU-----UCaaGGAGGAGcuucu -5'
20080 3' -53.2 NC_004687.1 + 95940 0.66 0.967349
Target:  5'- cAGgcGuCCCGAGUUCgaUCCUCGGugGGAg -3'
miRNA:   3'- -UCauCcGGGUUCAAGg-AGGAGCU--UCU- -5'
20080 3' -53.2 NC_004687.1 + 134831 0.66 0.967031
Target:  5'- --cAGGCCCAGGUugaggugUUCggCgUCGAAGAu -3'
miRNA:   3'- ucaUCCGGGUUCA-------AGGa-GgAGCUUCU- -5'
20080 3' -53.2 NC_004687.1 + 137831 0.67 0.956812
Target:  5'- cGGUcaGGGCCCGGcGggCCUCgaCGAGGu -3'
miRNA:   3'- -UCA--UCCGGGUU-CaaGGAGgaGCUUCu -5'
20080 3' -53.2 NC_004687.1 + 21954 0.67 0.956812
Target:  5'- ---cGGCCCAGucGUcgaCCUCCUCGGugGGAu -3'
miRNA:   3'- ucauCCGGGUU--CAa--GGAGGAGCU--UCU- -5'
20080 3' -53.2 NC_004687.1 + 145992 0.67 0.952836
Target:  5'- ---cGGCCCAGGUgUCCUUgUCGuuGGu -3'
miRNA:   3'- ucauCCGGGUUCA-AGGAGgAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 71320 0.67 0.952836
Target:  5'- aGGU-GGUCCAAGgu-CUCCUCGguGAu -3'
miRNA:   3'- -UCAuCCGGGUUCaagGAGGAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 146137 0.67 0.952836
Target:  5'- aGGUAGcGCCUgauGGUgacggucaugUCCUCC-CGAAGGg -3'
miRNA:   3'- -UCAUC-CGGGu--UCA----------AGGAGGaGCUUCU- -5'
20080 3' -53.2 NC_004687.1 + 44088 0.67 0.952836
Target:  5'- --cAGGCCCAGGcggucgcgUCgaCCUCGGAGc -3'
miRNA:   3'- ucaUCCGGGUUCa-------AGgaGGAGCUUCu -5'
20080 3' -53.2 NC_004687.1 + 148526 0.67 0.944164
Target:  5'- gAGcUGGaGCUgAAGUUCCUCCa-GGAGAa -3'
miRNA:   3'- -UC-AUC-CGGgUUCAAGGAGGagCUUCU- -5'
20080 3' -53.2 NC_004687.1 + 119866 0.67 0.939462
Target:  5'- --aGGGCCCAGGUUCaggcCCUUGucGGu -3'
miRNA:   3'- ucaUCCGGGUUCAAGga--GGAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 131786 0.67 0.939462
Target:  5'- aGGUAGGuuCCCuAGcaCCUCCcUCGGAGGc -3'
miRNA:   3'- -UCAUCC--GGGuUCaaGGAGG-AGCUUCU- -5'
20080 3' -53.2 NC_004687.1 + 53588 0.68 0.923865
Target:  5'- aAGcGGGUCCu-GUUCgUCCUCGAcGAg -3'
miRNA:   3'- -UCaUCCGGGuuCAAGgAGGAGCUuCU- -5'
20080 3' -53.2 NC_004687.1 + 69239 0.69 0.899588
Target:  5'- gAGUAGGCgauugCCAGGUcggcgguguaggUCCUCUUCGAc-- -3'
miRNA:   3'- -UCAUCCG-----GGUUCA------------AGGAGGAGCUucu -5'
20080 3' -53.2 NC_004687.1 + 121144 0.69 0.885988
Target:  5'- uGUGGcaGCUCGGGggCCUgCUCGggGAc -3'
miRNA:   3'- uCAUC--CGGGUUCaaGGAgGAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 10646 0.7 0.839743
Target:  5'- --cAGGCCuUGAGgaCCUCUUCGggGAu -3'
miRNA:   3'- ucaUCCGG-GUUCaaGGAGGAGCuuCU- -5'
20080 3' -53.2 NC_004687.1 + 22224 0.7 0.839743
Target:  5'- uGGUGGGCCaGGGUUgCggcagCCUCGggGu -3'
miRNA:   3'- -UCAUCCGGgUUCAAgGa----GGAGCuuCu -5'
20080 3' -53.2 NC_004687.1 + 64234 0.71 0.820054
Target:  5'- aGGUAGGCCUggcgauggAAGUccucuuccucggccUgCUCCUCGggGGa -3'
miRNA:   3'- -UCAUCCGGG--------UUCA--------------AgGAGGAGCuuCU- -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.