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
27302 3' -40.7 NC_005856.1 + 14860 0.66 1
Target:  5'- cGAUCcGCUugGGu-UGAAGGGAUuaaGCg -3'
miRNA:   3'- aCUAGuUGGugCUuuACUUCUUUA---UG- -5'
27302 3' -40.7 NC_005856.1 + 57885 0.99 0.23293
Target:  5'- cUGAUCAACCA-GAAAUGAAGAAAUACa -3'
miRNA:   3'- -ACUAGUUGGUgCUUUACUUCUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 40415 0.73 0.999611
Target:  5'- aGAUCAccGCCAC-AAGUGAAGA--UGCc -3'
miRNA:   3'- aCUAGU--UGGUGcUUUACUUCUuuAUG- -5'
27302 3' -40.7 NC_005856.1 + 46308 0.72 0.999825
Target:  5'- gUGAUaugGAUCugGAuAAUGggGAAGUGCc -3'
miRNA:   3'- -ACUAg--UUGGugCU-UUACuuCUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 50543 0.69 0.999996
Target:  5'- cGAUCAgaauuccguuAUCACGcaaccAGGUGAAGAGAUAg -3'
miRNA:   3'- aCUAGU----------UGGUGC-----UUUACUUCUUUAUg -5'
27302 3' -40.7 NC_005856.1 + 13246 0.68 1
Target:  5'- cUGAUC-GCCACGc--UGAAGGAGUu- -3'
miRNA:   3'- -ACUAGuUGGUGCuuuACUUCUUUAug -5'
27302 3' -40.7 NC_005856.1 + 45694 0.68 1
Target:  5'- gUGAUCAAUC-CGGAcgGuaccGGGAAUAUa -3'
miRNA:   3'- -ACUAGUUGGuGCUUuaCu---UCUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 25842 0.67 1
Target:  5'- gUGAUCuGACUcuggACGAGAUGAA-AGAUGCc -3'
miRNA:   3'- -ACUAG-UUGG----UGCUUUACUUcUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 57259 0.67 1
Target:  5'- cUGGUCAaccguACCACGcuGUGggGuucgGCu -3'
miRNA:   3'- -ACUAGU-----UGGUGCuuUACuuCuuuaUG- -5'
27302 3' -40.7 NC_005856.1 + 59391 0.66 1
Target:  5'- -uGUUGGCgACGAAAUGggGAAc--- -3'
miRNA:   3'- acUAGUUGgUGCUUUACuuCUUuaug -5'
27302 3' -40.7 NC_005856.1 + 59919 0.66 1
Target:  5'- cUGGUCGccagGCCACauuuauUGAAGAGGUAa -3'
miRNA:   3'- -ACUAGU----UGGUGcuuu--ACUUCUUUAUg -5'
27302 3' -40.7 NC_005856.1 + 33489 0.66 1
Target:  5'- cGggCAGCUACccgcguucauauuGAAAUGAAGAauuaauguuGAUGCg -3'
miRNA:   3'- aCuaGUUGGUG-------------CUUUACUUCU---------UUAUG- -5'
27302 3' -40.7 NC_005856.1 + 75181 0.66 1
Target:  5'- gUGGUCAAUaagCugGggGUGAAauuuGGUACa -3'
miRNA:   3'- -ACUAGUUG---GugCuuUACUUcu--UUAUG- -5'
27302 3' -40.7 NC_005856.1 + 63501 0.7 0.999991
Target:  5'- gGAgCAACCGCuGAGUGucagcAGGAAUACg -3'
miRNA:   3'- aCUaGUUGGUGcUUUACu----UCUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 91037 0.66 1
Target:  5'- cGAUCAGCaaaaagACGAuGAUGAAGG--UACu -3'
miRNA:   3'- aCUAGUUGg-----UGCU-UUACUUCUuuAUG- -5'
27302 3' -40.7 NC_005856.1 + 27914 0.66 1
Target:  5'- aGAUCAGCCA---GGUGgcGAGcUGCg -3'
miRNA:   3'- aCUAGUUGGUgcuUUACuuCUUuAUG- -5'
27302 3' -40.7 NC_005856.1 + 57155 0.67 1
Target:  5'- cGGUUGACCAgcgcCGGAGUGGucGGAUGCu -3'
miRNA:   3'- aCUAGUUGGU----GCUUUACUucUUUAUG- -5'
27302 3' -40.7 NC_005856.1 + 71297 0.67 1
Target:  5'- uUGAUaacuGCCGCuGGGAUGAAGu--UGCa -3'
miRNA:   3'- -ACUAgu--UGGUG-CUUUACUUCuuuAUG- -5'
27302 3' -40.7 NC_005856.1 + 25696 0.68 1
Target:  5'- uUGAUCGGCCcACuGAAUGGAGGc---- -3'
miRNA:   3'- -ACUAGUUGG-UGcUUUACUUCUuuaug -5'
27302 3' -40.7 NC_005856.1 + 56496 0.68 1
Target:  5'- aUGGUUAACuCACGGGuaGguGAAAUACa -3'
miRNA:   3'- -ACUAGUUG-GUGCUUuaCuuCUUUAUG- -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.