miRNA display CGI


Results 1 - 20 of 69 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
5451 3' -58.9 NC_001798.1 + 149235 0.78 0.205798
Target:  5'- cCccGUGGCCCgcgGGGGCGUCGCcGGCCg -3'
miRNA:   3'- aGucCACCGGG---UCCUGCAGCGaCUGG- -5'
5451 3' -58.9 NC_001798.1 + 130089 0.76 0.279454
Target:  5'- gUCGGGcacaGGCCCGGGGCGUUGCacucgGGCg -3'
miRNA:   3'- -AGUCCa---CCGGGUCCUGCAGCGa----CUGg -5'
5451 3' -58.9 NC_001798.1 + 20337 0.75 0.327139
Target:  5'- cCAGGUGGCgCAGG-CGguuggCGCUG-CCg -3'
miRNA:   3'- aGUCCACCGgGUCCuGCa----GCGACuGG- -5'
5451 3' -58.9 NC_001798.1 + 71974 0.74 0.364739
Target:  5'- cCuGGUGGUCgGGGACG-CGCUGaggGCCa -3'
miRNA:   3'- aGuCCACCGGgUCCUGCaGCGAC---UGG- -5'
5451 3' -58.9 NC_001798.1 + 34304 0.74 0.372609
Target:  5'- aCGGGuUGGCUCGcGGGCGgugCGgCUGACCu -3'
miRNA:   3'- aGUCC-ACCGGGU-CCUGCa--GC-GACUGG- -5'
5451 3' -58.9 NC_001798.1 + 12355 0.73 0.405223
Target:  5'- -gAGGUGGCUguGGGCG-CGgUGGCUa -3'
miRNA:   3'- agUCCACCGGguCCUGCaGCgACUGG- -5'
5451 3' -58.9 NC_001798.1 + 125481 0.72 0.457366
Target:  5'- gUCuGGUGGCgCUuGGGCGUCGCggUGGCa -3'
miRNA:   3'- -AGuCCACCG-GGuCCUGCAGCG--ACUGg -5'
5451 3' -58.9 NC_001798.1 + 28589 0.72 0.475532
Target:  5'- aUCuGGUGGCCUGGGAgaCGgccgcgCGCcUGGCCc -3'
miRNA:   3'- -AGuCCACCGGGUCCU--GCa-----GCG-ACUGG- -5'
5451 3' -58.9 NC_001798.1 + 2604 0.72 0.48475
Target:  5'- uUCGGGgGGCgCGGGGCGcCGCccggcggcgcccUGGCCg -3'
miRNA:   3'- -AGUCCaCCGgGUCCUGCaGCG------------ACUGG- -5'
5451 3' -58.9 NC_001798.1 + 78546 0.71 0.493118
Target:  5'- gCGGGUcauggcgGGCCUgcGGGAgG-CGCUGGCCg -3'
miRNA:   3'- aGUCCA-------CCGGG--UCCUgCaGCGACUGG- -5'
5451 3' -58.9 NC_001798.1 + 28626 0.71 0.541686
Target:  5'- aCGGG-GGUCCuGGGCG-CGCgagcgGGCCg -3'
miRNA:   3'- aGUCCaCCGGGuCCUGCaGCGa----CUGG- -5'
5451 3' -58.9 NC_001798.1 + 36321 0.71 0.541686
Target:  5'- gCGGGccgGGgCCGGGGC-UCGCUGGuCCg -3'
miRNA:   3'- aGUCCa--CCgGGUCCUGcAGCGACU-GG- -5'
5451 3' -58.9 NC_001798.1 + 72652 0.7 0.5651
Target:  5'- gCuGGcGGCCCAGGucucgcacgaggguaACGU-GCUGGCCg -3'
miRNA:   3'- aGuCCaCCGGGUCC---------------UGCAgCGACUGG- -5'
5451 3' -58.9 NC_001798.1 + 109899 0.7 0.570997
Target:  5'- -gAGGgcgGGUUCAuccuGGACG-CGCUGGCCa -3'
miRNA:   3'- agUCCa--CCGGGU----CCUGCaGCGACUGG- -5'
5451 3' -58.9 NC_001798.1 + 98573 0.7 0.590751
Target:  5'- gCuGGUGGCCgCGGuGGCGUCgGC-GGCCc -3'
miRNA:   3'- aGuCCACCGG-GUC-CUGCAG-CGaCUGG- -5'
5451 3' -58.9 NC_001798.1 + 103002 0.7 0.600674
Target:  5'- cCGGG-GGCCCAGG-UG-CGCccGGCCa -3'
miRNA:   3'- aGUCCaCCGGGUCCuGCaGCGa-CUGG- -5'
5451 3' -58.9 NC_001798.1 + 95571 0.69 0.61062
Target:  5'- -gAGGUGGCCCAcGAgG-CGgaGGCCc -3'
miRNA:   3'- agUCCACCGGGUcCUgCaGCgaCUGG- -5'
5451 3' -58.9 NC_001798.1 + 77352 0.69 0.61062
Target:  5'- cUCGGcUGGCCCuGGAgG-CGCggggGGCCa -3'
miRNA:   3'- -AGUCcACCGGGuCCUgCaGCGa---CUGG- -5'
5451 3' -58.9 NC_001798.1 + 35537 0.69 0.61062
Target:  5'- gCGGccGGCgCGGGGCGUUGCcGGCCc -3'
miRNA:   3'- aGUCcaCCGgGUCCUGCAGCGaCUGG- -5'
5451 3' -58.9 NC_001798.1 + 108822 0.69 0.616594
Target:  5'- gUCGGccucgacGUGGCCCGuGGGCGUCuggacgacgggcggGCUGGCg -3'
miRNA:   3'- -AGUC-------CACCGGGU-CCUGCAG--------------CGACUGg -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.