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
8113 5' -60.3 NC_001978.2 + 9794 0.66 0.390694
Target:  5'- cUGGGUGCCgaagagcgucacagcGGUCGCgAUaCGCUCCGc -3'
miRNA:   3'- -ACUCACGG---------------CCAGUGgUAcGCGGGGCu -5'
8113 5' -60.3 NC_001978.2 + 33863 0.66 0.38713
Target:  5'- cGGGUGCCG---ACCGUGCGCguguacgCCGAc -3'
miRNA:   3'- aCUCACGGCcagUGGUACGCGg------GGCU- -5'
8113 5' -60.3 NC_001978.2 + 28772 0.66 0.378312
Target:  5'- uUGA--GCCGcgaaGUCGCCGuugauggacaUGCGCCCCGu -3'
miRNA:   3'- -ACUcaCGGC----CAGUGGU----------ACGCGGGGCu -5'
8113 5' -60.3 NC_001978.2 + 12121 0.66 0.35268
Target:  5'- aGAcGUGCCGGaaGCCGccGCGCgCCGu -3'
miRNA:   3'- aCU-CACGGCCagUGGUa-CGCGgGGCu -5'
8113 5' -60.3 NC_001978.2 + 8527 0.66 0.344414
Target:  5'- -aAG-GCCGGUucgCGCC--GUGCCCCGAu -3'
miRNA:   3'- acUCaCGGCCA---GUGGuaCGCGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 28070 0.67 0.336288
Target:  5'- uUGAG-GCCGGUC-CCaAUGCcgccGUCCUGGg -3'
miRNA:   3'- -ACUCaCGGCCAGuGG-UACG----CGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 12192 0.67 0.334679
Target:  5'- --cGUGCCGGagccgaccgcaACCGUGCGCgCCGu -3'
miRNA:   3'- acuCACGGCCag---------UGGUACGCGgGGCu -5'
8113 5' -60.3 NC_001978.2 + 12225 0.67 0.305193
Target:  5'- --cGUGCCGcccccaGCCGUGC-CCCCGAu -3'
miRNA:   3'- acuCACGGCcag---UGGUACGcGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 19545 0.67 0.305193
Target:  5'- aGGGUcacgGCaCGGcgUCACCgaucGUGCGCCCCa- -3'
miRNA:   3'- aCUCA----CG-GCC--AGUGG----UACGCGGGGcu -5'
8113 5' -60.3 NC_001978.2 + 31 0.68 0.290492
Target:  5'- gUGAGccGCCGGaC-CCAgGCGCCCCc- -3'
miRNA:   3'- -ACUCa-CGGCCaGuGGUaCGCGGGGcu -5'
8113 5' -60.3 NC_001978.2 + 35152 0.68 0.283352
Target:  5'- uUGGuUGcCCGGcuucugaguUCGCCGUcaGCGCCCCGGu -3'
miRNA:   3'- -ACUcAC-GGCC---------AGUGGUA--CGCGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 6096 0.68 0.276352
Target:  5'- gGAGUGaCC-GUCagaACCuucGCGCCCCGGg -3'
miRNA:   3'- aCUCAC-GGcCAG---UGGua-CGCGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 23458 0.68 0.26949
Target:  5'- aGAGaUGaUCGGUCAgCCGUGCGggugCCCGAa -3'
miRNA:   3'- aCUC-AC-GGCCAGU-GGUACGCg---GGGCU- -5'
8113 5' -60.3 NC_001978.2 + 3670 0.68 0.268135
Target:  5'- aGGGUGCgaaguuuucgaaGGUgGCUAUGaGCCCCGAc -3'
miRNA:   3'- aCUCACGg-----------CCAgUGGUACgCGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 17635 0.68 0.262767
Target:  5'- --cGUcGCCGGUCGCCuUGUGCUuguaaCCGAa -3'
miRNA:   3'- acuCA-CGGCCAGUGGuACGCGG-----GGCU- -5'
8113 5' -60.3 NC_001978.2 + 34180 0.68 0.25618
Target:  5'- cGGGcacGCCGGaaggggCACCGUuguaacccGUGCCCCGAa -3'
miRNA:   3'- aCUCa--CGGCCa-----GUGGUA--------CGCGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 19001 0.7 0.208269
Target:  5'- aGcGUGCCgGGUCgagucacccgaACCAUGCugaaGCCCCGGu -3'
miRNA:   3'- aCuCACGG-CCAG-----------UGGUACG----CGGGGCU- -5'
8113 5' -60.3 NC_001978.2 + 4521 0.71 0.177593
Target:  5'- aGcGUGCCGGaagaCGUGCGCCCCa- -3'
miRNA:   3'- aCuCACGGCCagugGUACGCGGGGcu -5'
8113 5' -60.3 NC_001978.2 + 17763 0.71 0.177593
Target:  5'- cUGGGUGaCCuGGgCGCCAcGUGCCCCGu -3'
miRNA:   3'- -ACUCAC-GG-CCaGUGGUaCGCGGGGCu -5'
8113 5' -60.3 NC_001978.2 + 14238 0.73 0.114622
Target:  5'- ---uUGCCGGaCACCAUGcCGCgCCCGAu -3'
miRNA:   3'- acucACGGCCaGUGGUAC-GCG-GGGCU- -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.