miRNA display CGI


Results 1 - 20 of 24 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
27254 3' -43.8 NC_005841.1 + 8752 1.19 0.003039
Target:  5'- aGCCUGAAAGAAGAAACAACAACAGCCg -3'
miRNA:   3'- -CGGACUUUCUUCUUUGUUGUUGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 3933 0.79 0.628121
Target:  5'- aGCUUGcAGGAAGAAugGGaAGCAGCCu -3'
miRNA:   3'- -CGGACuUUCUUCUUugUUgUUGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 23176 0.75 0.814309
Target:  5'- aGCCaGuaaguGggGAAAUAACAcugGCAGCCa -3'
miRNA:   3'- -CGGaCuuu--CuuCUUUGUUGU---UGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 28105 0.74 0.877993
Target:  5'- cGCCUGAAgagcagcaaugguuAGuAGAGGCG-CAACaAGCCa -3'
miRNA:   3'- -CGGACUU--------------UCuUCUUUGUuGUUG-UCGG- -5'
27254 3' -43.8 NC_005841.1 + 14794 0.73 0.888817
Target:  5'- aCCUGAGAGAAGAAACcguucuucCAuCGGCUu -3'
miRNA:   3'- cGGACUUUCUUCUUUGuu------GUuGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 32463 0.73 0.911691
Target:  5'- cGCCUGucAGGGAGAAAUAcucuaucguCGACgAGCCa -3'
miRNA:   3'- -CGGACu-UUCUUCUUUGUu--------GUUG-UCGG- -5'
27254 3' -43.8 NC_005841.1 + 8275 0.72 0.936888
Target:  5'- uCCUGAAauugaGGAAGAAguggaGCAGCAAauuaacuUAGCCg -3'
miRNA:   3'- cGGACUU-----UCUUCUU-----UGUUGUU-------GUCGG- -5'
27254 3' -43.8 NC_005841.1 + 19432 0.72 0.943059
Target:  5'- uGCgUGAcagcAGAAGAGagGCAGCAugAGCa -3'
miRNA:   3'- -CGgACUu---UCUUCUU--UGUUGUugUCGg -5'
27254 3' -43.8 NC_005841.1 + 28065 0.71 0.957838
Target:  5'- aGUgUGAAGuacuGAAGCAACAGCAGUUg -3'
miRNA:   3'- -CGgACUUUcuu-CUUUGUUGUUGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 26803 0.71 0.964139
Target:  5'- uGCCUGcucccauguuaucuGGGACAGCAACAGCa -3'
miRNA:   3'- -CGGACuuucuu--------CUUUGUUGUUGUCGg -5'
27254 3' -43.8 NC_005841.1 + 36584 0.71 0.967587
Target:  5'- uGCCUGGuacuuuuGAGAGGCAAUAACgucuuuccaugccuuAGCCa -3'
miRNA:   3'- -CGGACUuuc----UUCUUUGUUGUUG---------------UCGG- -5'
27254 3' -43.8 NC_005841.1 + 4185 0.7 0.96975
Target:  5'- -aCUGAAGGcAGAAGCAugGAgGGUa -3'
miRNA:   3'- cgGACUUUCuUCUUUGUugUUgUCGg -5'
27254 3' -43.8 NC_005841.1 + 28859 0.7 0.972799
Target:  5'- aUCUGucaGAAGAAGGccuggccaaauauGACuauGACAACAGCCg -3'
miRNA:   3'- cGGAC---UUUCUUCU-------------UUG---UUGUUGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 4900 0.69 0.98393
Target:  5'- cGCCUGAuuaucacaaaGGGAuauccGAAgcGCGACGAuucCAGCCg -3'
miRNA:   3'- -CGGACU----------UUCUu----CUU--UGUUGUU---GUCGG- -5'
27254 3' -43.8 NC_005841.1 + 24798 0.68 0.991069
Target:  5'- aCCUGAuaAGGGAGAucGCGAUAAgcGCCg -3'
miRNA:   3'- cGGACU--UUCUUCUu-UGUUGUUguCGG- -5'
27254 3' -43.8 NC_005841.1 + 7635 0.68 0.992385
Target:  5'- uCCUGAAAGAcuucagcGAuuauGCAGCAACAGa- -3'
miRNA:   3'- cGGACUUUCUu------CUu---UGUUGUUGUCgg -5'
27254 3' -43.8 NC_005841.1 + 36710 0.68 0.992385
Target:  5'- aGCCguUGGAGGuGGAuaAGCAGCAuagaaAGCCu -3'
miRNA:   3'- -CGG--ACUUUCuUCU--UUGUUGUug---UCGG- -5'
27254 3' -43.8 NC_005841.1 + 35511 0.68 0.993543
Target:  5'- cCCUGAGA-AAG-AGCGACGuUAGCCu -3'
miRNA:   3'- cGGACUUUcUUCuUUGUUGUuGUCGG- -5'
27254 3' -43.8 NC_005841.1 + 18146 0.68 0.993543
Target:  5'- uGCCaGAGAcGAAGGggGACGuauggcACGACAGCg -3'
miRNA:   3'- -CGGaCUUU-CUUCU--UUGU------UGUUGUCGg -5'
27254 3' -43.8 NC_005841.1 + 18998 0.68 0.993543
Target:  5'- aGCagcAGAGAAGAAACGACGACGa-- -3'
miRNA:   3'- -CGgacUUUCUUCUUUGUUGUUGUcgg -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.