miRNA display CGI


Results 1 - 20 of 25 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
12861 3' -52.1 NC_003387.1 + 24136 0.66 0.881571
Target:  5'- cGCGGCGGUguugagcuUGAGGGCgUCgucgacGGCGAu -3'
miRNA:   3'- -CGCCGCUA--------GCUCUUG-AGaaa---CCGCUc -5'
12861 3' -52.1 NC_003387.1 + 22056 0.66 0.881571
Target:  5'- gGCGGCGAUCaccGGcAC-CgUUGGCGAc -3'
miRNA:   3'- -CGCCGCUAGc--UCuUGaGaAACCGCUc -5'
12861 3' -52.1 NC_003387.1 + 4277 0.66 0.873734
Target:  5'- cGCgGGCGAUgGAGGccGCg----GGCGAGc -3'
miRNA:   3'- -CG-CCGCUAgCUCU--UGagaaaCCGCUC- -5'
12861 3' -52.1 NC_003387.1 + 3326 0.66 0.873734
Target:  5'- uGUGGCGugacacCGAGGcccGCUCgUUUGGCGcGg -3'
miRNA:   3'- -CGCCGCua----GCUCU---UGAG-AAACCGCuC- -5'
12861 3' -52.1 NC_003387.1 + 11304 0.66 0.865638
Target:  5'- gGCGGCGAcagCGGcaAGCUC---GGCGAGa -3'
miRNA:   3'- -CGCCGCUa--GCUc-UUGAGaaaCCGCUC- -5'
12861 3' -52.1 NC_003387.1 + 38950 0.66 0.862328
Target:  5'- uGCGGCGAcgcgaauugccggCGAGuAGCUagcUGGCGAa -3'
miRNA:   3'- -CGCCGCUa------------GCUC-UUGAgaaACCGCUc -5'
12861 3' -52.1 NC_003387.1 + 1590 0.66 0.857288
Target:  5'- cUGGCGGUCGAcAugUCgcacggccUGGCGAu -3'
miRNA:   3'- cGCCGCUAGCUcUugAGaa------ACCGCUc -5'
12861 3' -52.1 NC_003387.1 + 20651 0.66 0.857288
Target:  5'- gGCGGUGAgcgcgaaCGGGcGCUCggcGGCGAc -3'
miRNA:   3'- -CGCCGCUa------GCUCuUGAGaaaCCGCUc -5'
12861 3' -52.1 NC_003387.1 + 1381 0.66 0.848695
Target:  5'- uCGGCGcucagcggGUCGGGGucgcGCUCgaagUUGuGCGAGg -3'
miRNA:   3'- cGCCGC--------UAGCUCU----UGAGa---AAC-CGCUC- -5'
12861 3' -52.1 NC_003387.1 + 18044 0.66 0.847822
Target:  5'- aCGGCGuguuuuucGUCGGGcucgugcAGCUCguugGGCGAGa -3'
miRNA:   3'- cGCCGC--------UAGCUC-------UUGAGaaa-CCGCUC- -5'
12861 3' -52.1 NC_003387.1 + 2605 0.67 0.821534
Target:  5'- aCGGCGAUCGuGAccaggcGCUCgcgggccucGGCGAu -3'
miRNA:   3'- cGCCGCUAGCuCU------UGAGaaa------CCGCUc -5'
12861 3' -52.1 NC_003387.1 + 5509 0.67 0.812053
Target:  5'- -aGGUGAUCGAGcagcGGCUCgcccGCGAGc -3'
miRNA:   3'- cgCCGCUAGCUC----UUGAGaaacCGCUC- -5'
12861 3' -52.1 NC_003387.1 + 19554 0.67 0.802377
Target:  5'- gGCGGCGAUCcuuGGAUUCUUgcucGCGGu -3'
miRNA:   3'- -CGCCGCUAGcu-CUUGAGAAac--CGCUc -5'
12861 3' -52.1 NC_003387.1 + 21799 0.68 0.782479
Target:  5'- cGCGGCGGccagcUCGGcGAGCgacgCcgUGGCGAc -3'
miRNA:   3'- -CGCCGCU-----AGCU-CUUGa---GaaACCGCUc -5'
12861 3' -52.1 NC_003387.1 + 1457 0.68 0.782479
Target:  5'- -gGGCGAU-GAGAGCUUUaaGcGCGAGg -3'
miRNA:   3'- cgCCGCUAgCUCUUGAGAaaC-CGCUC- -5'
12861 3' -52.1 NC_003387.1 + 17178 0.68 0.751447
Target:  5'- cGCGGCG-UCGu--GCUCc-UGGCGGGc -3'
miRNA:   3'- -CGCCGCuAGCucuUGAGaaACCGCUC- -5'
12861 3' -52.1 NC_003387.1 + 11010 0.68 0.751447
Target:  5'- gGCGGCaguuUCGuuGGCUCgaUGGCGAa -3'
miRNA:   3'- -CGCCGcu--AGCucUUGAGaaACCGCUc -5'
12861 3' -52.1 NC_003387.1 + 1697 0.69 0.730108
Target:  5'- gGCGGCGGUCGAcuggaucgcuGAGCgggccgGGCGGc -3'
miRNA:   3'- -CGCCGCUAGCU----------CUUGagaaa-CCGCUc -5'
12861 3' -52.1 NC_003387.1 + 42847 0.7 0.675189
Target:  5'- gGCGGCGAUCGAGGucguGCagUCgaucaaGGuCGAGg -3'
miRNA:   3'- -CGCCGCUAGCUCU----UG--AGaaa---CC-GCUC- -5'
12861 3' -52.1 NC_003387.1 + 46748 0.71 0.574553
Target:  5'- gGCGGCaaccuggccgGGUCGAGcGACUCgcggUUcGGCGAGc -3'
miRNA:   3'- -CGCCG----------CUAGCUC-UUGAGa---AA-CCGCUC- -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.