miRNA display CGI


Results 1 - 16 of 16 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
401 5' -56.4 AC_000011.1 + 12927 0.66 0.559646
Target:  5'- gGuuGCccGGGUCguccugGCCCAggGCGCGGc -3'
miRNA:   3'- aCuuUGa-CCCAGa-----CGGGUggUGCGCC- -5'
401 5' -56.4 AC_000011.1 + 4688 0.66 0.53775
Target:  5'- gGAGGggGGGaUCaUGUCCACC-UGCGGg -3'
miRNA:   3'- aCUUUgaCCC-AG-ACGGGUGGuGCGCC- -5'
401 5' -56.4 AC_000011.1 + 24586 0.67 0.505489
Target:  5'- cGAGAaccgcCUGGGgcagaacgugCUGCacaCCACCcuGCGCGGg -3'
miRNA:   3'- aCUUU-----GACCCa---------GACG---GGUGG--UGCGCC- -5'
401 5' -56.4 AC_000011.1 + 22017 0.67 0.494919
Target:  5'- cGAccuGCUGGG-C-GCCCugCaacugACGCGGa -3'
miRNA:   3'- aCUu--UGACCCaGaCGGGugG-----UGCGCC- -5'
401 5' -56.4 AC_000011.1 + 12109 0.67 0.474088
Target:  5'- cGGAcgGCUGGcUCUGCagcgCCGCCcgcauCGCGGg -3'
miRNA:   3'- aCUU--UGACCcAGACG----GGUGGu----GCGCC- -5'
401 5' -56.4 AC_000011.1 + 5374 0.67 0.4527
Target:  5'- cGGAGCuuaccuuUGGaaGUCUGCCCG-CAgGCGGg -3'
miRNA:   3'- aCUUUG-------ACC--CAGACGGGUgGUgCGCC- -5'
401 5' -56.4 AC_000011.1 + 5538 0.68 0.443695
Target:  5'- cGAGACc--GUCUgcGCCCACUgcgGCGCGGa -3'
miRNA:   3'- aCUUUGaccCAGA--CGGGUGG---UGCGCC- -5'
401 5' -56.4 AC_000011.1 + 15196 0.68 0.41443
Target:  5'- aGGAGCUcGG-C-GCCCACCAC-CGGg -3'
miRNA:   3'- aCUUUGAcCCaGaCGGGUGGUGcGCC- -5'
401 5' -56.4 AC_000011.1 + 5754 0.68 0.395591
Target:  5'- gUGGGAC-GGGUagcggucgUUGUCCACCA-GCGGg -3'
miRNA:   3'- -ACUUUGaCCCA--------GACGGGUGGUgCGCC- -5'
401 5' -56.4 AC_000011.1 + 18629 0.69 0.377314
Target:  5'- aGguGCUGGccaUGUCCAgCACGCGGu -3'
miRNA:   3'- aCuuUGACCcagACGGGUgGUGCGCC- -5'
401 5' -56.4 AC_000011.1 + 3900 0.72 0.245784
Target:  5'- cUGAGccaccuGCUGGGUCaGCUCGCCcagGCGCuGGg -3'
miRNA:   3'- -ACUU------UGACCCAGaCGGGUGG---UGCG-CC- -5'
401 5' -56.4 AC_000011.1 + 24425 0.72 0.23309
Target:  5'- gUGGAGCUGGaGUgcCUGCgCCGCUucuucgccgACGCGGa -3'
miRNA:   3'- -ACUUUGACC-CA--GACG-GGUGG---------UGCGCC- -5'
401 5' -56.4 AC_000011.1 + 8208 0.73 0.209358
Target:  5'- cGAGGuCUGGacCUGCCUcCCGCGCGGg -3'
miRNA:   3'- aCUUU-GACCcaGACGGGuGGUGCGCC- -5'
401 5' -56.4 AC_000011.1 + 4051 0.74 0.187739
Target:  5'- cGAGACcgGuGGUCcaggGCCUACCGCGCGc -3'
miRNA:   3'- aCUUUGa-C-CCAGa---CGGGUGGUGCGCc -5'
401 5' -56.4 AC_000011.1 + 34883 0.75 0.159002
Target:  5'- --uGGCUGGGUCUgGCCCAuuCCACGgUGGu -3'
miRNA:   3'- acuUUGACCCAGA-CGGGU--GGUGC-GCC- -5'
401 5' -56.4 AC_000011.1 + 17934 1.1 0.000426
Target:  5'- gUGAAACUGGGUCUGCCCACCACGCGGc -3'
miRNA:   3'- -ACUUUGACCCAGACGGGUGGUGCGCC- -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.