miRNA display CGI


Results 1 - 20 of 89 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
20454 3' -61.6 NC_004688.1 + 102454 0.66 0.642345
Target:  5'- cGCauggGCCGCGaacGAUgagGCCGACGCUAUCGc -3'
miRNA:   3'- -CGg---CGGCGC---CUAg--CGGCUGUGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 102936 0.72 0.314659
Target:  5'- cGCCGCCGaGGAucggcuagagcuaUCGCgGGCGCgACUGg -3'
miRNA:   3'- -CGGCGGCgCCU-------------AGCGgCUGUGgUGGC- -5'
20454 3' -61.6 NC_004688.1 + 33656 0.72 0.315358
Target:  5'- cGCCgGCCGCgccgucaccaGGAcCGCCcACGCCGCCa -3'
miRNA:   3'- -CGG-CGGCG----------CCUaGCGGcUGUGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 79475 0.71 0.329591
Target:  5'- aUCGCCGCGGucUCgGCUGAUagGCCACCc -3'
miRNA:   3'- cGGCGGCGCCu-AG-CGGCUG--UGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 6200 0.71 0.336883
Target:  5'- uCCaGCgCGCGGua-GCgGACGCCGCCGa -3'
miRNA:   3'- cGG-CG-GCGCCuagCGgCUGUGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 25567 0.71 0.351817
Target:  5'- gGCCGCCGCauucgcgauGGGggcguucaucUUGCCGAUcugcccaggACCGCCGg -3'
miRNA:   3'- -CGGCGGCG---------CCU----------AGCGGCUG---------UGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 10076 0.71 0.351817
Target:  5'- uGgCGCCGUGGcgAUCGCCuGACGCUcgGCCu -3'
miRNA:   3'- -CgGCGGCGCC--UAGCGG-CUGUGG--UGGc -5'
20454 3' -61.6 NC_004688.1 + 86812 0.71 0.359459
Target:  5'- aGCCGUCaccCGGAUCGUcccgaaCGGgACCGCCGg -3'
miRNA:   3'- -CGGCGGc--GCCUAGCG------GCUgUGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 46754 0.7 0.367215
Target:  5'- aUCGCCcgGCGGGcccugaUCGCCGGCgcgaugGCCACCa -3'
miRNA:   3'- cGGCGG--CGCCU------AGCGGCUG------UGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 46490 0.72 0.308418
Target:  5'- aUCGCCGCGGGcUCcCCgGugACCACCa -3'
miRNA:   3'- cGGCGGCGCCU-AGcGG-CugUGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 90199 0.72 0.288299
Target:  5'- aGuuGCCGCGGAauUCGCUGucucGCACUACgGc -3'
miRNA:   3'- -CggCGGCGCCU--AGCGGC----UGUGGUGgC- -5'
20454 3' -61.6 NC_004688.1 + 38676 0.73 0.271709
Target:  5'- cGCCGCCGCGGcgguagguAUCaucgaaacucugguaGCCcGCACCGCCc -3'
miRNA:   3'- -CGGCGGCGCC--------UAG---------------CGGcUGUGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 30914 0.79 0.101101
Target:  5'- cCCGCC-CGGAUCGaCCGGgguCACCACCGg -3'
miRNA:   3'- cGGCGGcGCCUAGC-GGCU---GUGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 41372 0.77 0.137
Target:  5'- cGCCGCCGUaaacguaaGGAUUGCCGAC-CCGCg- -3'
miRNA:   3'- -CGGCGGCG--------CCUAGCGGCUGuGGUGgc -5'
20454 3' -61.6 NC_004688.1 + 22880 0.76 0.1755
Target:  5'- cGCCGCCGCGG--CGCCuACcccuACCGCCGc -3'
miRNA:   3'- -CGGCGGCGCCuaGCGGcUG----UGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 26400 0.75 0.184276
Target:  5'- uGCCGCCGCcGAggcCGCCGGaGCUGCCGg -3'
miRNA:   3'- -CGGCGGCGcCUa--GCGGCUgUGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 4206 0.75 0.193437
Target:  5'- -gCGCCGCGGG-CGCCGAgGCCcUCGg -3'
miRNA:   3'- cgGCGGCGCCUaGCGGCUgUGGuGGC- -5'
20454 3' -61.6 NC_004688.1 + 60812 0.75 0.207925
Target:  5'- gGCCGCgGCGG-UCGCCaaugguccaGGCcCCGCCGg -3'
miRNA:   3'- -CGGCGgCGCCuAGCGG---------CUGuGGUGGC- -5'
20454 3' -61.6 NC_004688.1 + 33869 0.73 0.244822
Target:  5'- cGCCGUUaccggcaccaccaGCGGGcgCGCCGugGCCGCCc -3'
miRNA:   3'- -CGGCGG-------------CGCCUa-GCGGCugUGGUGGc -5'
20454 3' -61.6 NC_004688.1 + 75580 0.73 0.245395
Target:  5'- gGCCGCCGCGGAcuccUCcgGCUGACccgaGCCAUCc -3'
miRNA:   3'- -CGGCGGCGCCU----AG--CGGCUG----UGGUGGc -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.