miRNA display CGI


Results 1 - 20 of 28 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
20721 3' -61.1 NC_004688.1 + 101792 0.66 0.657456
Target:  5'- aACCGAG-AGCCuccggaaGGGagcgcaggccgacGCUGGUGGUCg -3'
miRNA:   3'- gUGGCUCuUCGG-------CCC-------------UGGCCGCCAGg -5'
20721 3' -61.1 NC_004688.1 + 72687 0.66 0.649491
Target:  5'- uCACCGAGuuGUCcaaGGGuguCCGcUGGUCCg -3'
miRNA:   3'- -GUGGCUCuuCGG---CCCu--GGCcGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 24059 0.66 0.647498
Target:  5'- uCACCcGGAucgucccgaaCGGGACCGcCGGUCCc -3'
miRNA:   3'- -GUGGcUCUucg-------GCCCUGGCcGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 43251 0.66 0.639523
Target:  5'- cCACCGuuacgggcaGGAGGUCGucGgCGGCGGUCg -3'
miRNA:   3'- -GUGGC---------UCUUCGGCccUgGCCGCCAGg -5'
20721 3' -61.1 NC_004688.1 + 57356 0.66 0.639523
Target:  5'- -cCCGAGggGCUuuuGGGGcuggacCCGGgGGUUg -3'
miRNA:   3'- guGGCUCuuCGG---CCCU------GGCCgCCAGg -5'
20721 3' -61.1 NC_004688.1 + 102394 0.66 0.62955
Target:  5'- uCGCCGAGuucGGCUGGGguucuugcGCCGGUucuUCCg -3'
miRNA:   3'- -GUGGCUCu--UCGGCCC--------UGGCCGcc-AGG- -5'
20721 3' -61.1 NC_004688.1 + 60020 0.66 0.609617
Target:  5'- gUACCGGGAgucacuguGGacuuuuguguaCCGGGAUUGGCGGgaggugCCu -3'
miRNA:   3'- -GUGGCUCU--------UC-----------GGCCCUGGCCGCCa-----GG- -5'
20721 3' -61.1 NC_004688.1 + 11503 0.67 0.59967
Target:  5'- uCACCGAu-AGCCGGGugauCCuggacgagGGCGGagCCg -3'
miRNA:   3'- -GUGGCUcuUCGGCCCu---GG--------CCGCCa-GG- -5'
20721 3' -61.1 NC_004688.1 + 84471 0.67 0.598677
Target:  5'- cCGCCGAGGccgccggAGCUGccGGACCGGCcaucgCCg -3'
miRNA:   3'- -GUGGCUCU-------UCGGC--CCUGGCCGcca--GG- -5'
20721 3' -61.1 NC_004688.1 + 52055 0.67 0.568027
Target:  5'- uCGCCGGc--GCCGGGGCCaucgccaccaccGCGGUCUc -3'
miRNA:   3'- -GUGGCUcuuCGGCCCUGGc-----------CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 8495 0.67 0.560177
Target:  5'- gGCCGGcGGAGCa-GGugUGGCcGGUCUa -3'
miRNA:   3'- gUGGCU-CUUCGgcCCugGCCG-CCAGG- -5'
20721 3' -61.1 NC_004688.1 + 36137 0.67 0.554309
Target:  5'- gACCGAGAAcGUgGGGAcaccuuuccgguugaCCaGGCGGgugCCg -3'
miRNA:   3'- gUGGCUCUU-CGgCCCU---------------GG-CCGCCa--GG- -5'
20721 3' -61.1 NC_004688.1 + 24971 0.68 0.531032
Target:  5'- aCACCG-GAGcGuuGGGACCGaGCcccccGGUCUc -3'
miRNA:   3'- -GUGGCuCUU-CggCCCUGGC-CG-----CCAGG- -5'
20721 3' -61.1 NC_004688.1 + 62158 0.68 0.53007
Target:  5'- uCACCGAGAAGCCaGagccacgagacccGAUCGGCacGGUgCg -3'
miRNA:   3'- -GUGGCUCUUCGGcC-------------CUGGCCG--CCAgG- -5'
20721 3' -61.1 NC_004688.1 + 84831 0.68 0.520481
Target:  5'- -uCCGGGGAGgcccgugggcauaCCGGuGCUGaGCGGUCCg -3'
miRNA:   3'- guGGCUCUUC-------------GGCCcUGGC-CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 32261 0.69 0.481011
Target:  5'- aCACCGGGGAagguuuaucggggcGCUcaGGGAUCauccGCGGUCCa -3'
miRNA:   3'- -GUGGCUCUU--------------CGG--CCCUGGc---CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 56986 0.7 0.421276
Target:  5'- gGCCGAGAAGCCGcccucccccuuGGugCGGUacUCCc -3'
miRNA:   3'- gUGGCUCUUCGGC-----------CCugGCCGccAGG- -5'
20721 3' -61.1 NC_004688.1 + 55044 0.7 0.412748
Target:  5'- gAUCGAGGugggcGCCGcGACCGGCGG-CUa -3'
miRNA:   3'- gUGGCUCUu----CGGCcCUGGCCGCCaGG- -5'
20721 3' -61.1 NC_004688.1 + 86958 0.7 0.396015
Target:  5'- uGCCGAGuccGCCGGcgaGGCCGGCGaUCa -3'
miRNA:   3'- gUGGCUCuu-CGGCC---CUGGCCGCcAGg -5'
20721 3' -61.1 NC_004688.1 + 105644 0.71 0.379727
Target:  5'- aGCCGAGcAGGUaCGGGucgACCGGaaGGUCCg -3'
miRNA:   3'- gUGGCUC-UUCG-GCCC---UGGCCg-CCAGG- -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.