miRNA display CGI


Results 1 - 20 of 77 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
12000 3' -59.6 NC_003278.1 + 19595 1.14 0.000086
Target:  5'- cGGCCAGCAUGAGCGCGACCUGCGCGCg -3'
miRNA:   3'- -CCGGUCGUACUCGCGCUGGACGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 14465 0.81 0.030752
Target:  5'- aGGCCAGCGUcgaGAGCGgGAgC-GCGCGCa -3'
miRNA:   3'- -CCGGUCGUA---CUCGCgCUgGaCGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 7122 0.76 0.07345
Target:  5'- uGGCCcaccaucgagcucgAGCAUGuGCGCGcgaACCUGCGCa- -3'
miRNA:   3'- -CCGG--------------UCGUACuCGCGC---UGGACGCGcg -5'
12000 3' -59.6 NC_003278.1 + 30161 0.76 0.07409
Target:  5'- cGGCUgaaGGUucacAGCGCGACgCUGCGCGCu -3'
miRNA:   3'- -CCGG---UCGuac-UCGCGCUG-GACGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 19436 0.75 0.09327
Target:  5'- cGGCCAGCGc-GGUGCuGACCUGCuccaggGCGCc -3'
miRNA:   3'- -CCGGUCGUacUCGCG-CUGGACG------CGCG- -5'
12000 3' -59.6 NC_003278.1 + 7985 0.74 0.107557
Target:  5'- cGCCAuCAUGGGCcuCGGCCUGgGCGUa -3'
miRNA:   3'- cCGGUcGUACUCGc-GCUGGACgCGCG- -5'
12000 3' -59.6 NC_003278.1 + 13543 0.73 0.113829
Target:  5'- -aCCAGUugcUGAGCGUGACCU-UGCGCa -3'
miRNA:   3'- ccGGUCGu--ACUCGCGCUGGAcGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 21234 0.73 0.12741
Target:  5'- cGCCGGCGuccugggcuaccUGGGCauCGACCUGCcgGCGCg -3'
miRNA:   3'- cCGGUCGU------------ACUCGc-GCUGGACG--CGCG- -5'
12000 3' -59.6 NC_003278.1 + 10609 0.72 0.13475
Target:  5'- aGCCAcGCAaGaAGCGCGAaCUGCGCGg -3'
miRNA:   3'- cCGGU-CGUaC-UCGCGCUgGACGCGCg -5'
12000 3' -59.6 NC_003278.1 + 19680 0.72 0.142476
Target:  5'- aGCCAGCAgcagGAGCGCcuGACCcaaGCcCGCa -3'
miRNA:   3'- cCGGUCGUa---CUCGCG--CUGGa--CGcGCG- -5'
12000 3' -59.6 NC_003278.1 + 15693 0.71 0.163594
Target:  5'- uGGUCAGCcUGGGUccgcuGCGAUCUGgGCGg -3'
miRNA:   3'- -CCGGUCGuACUCG-----CGCUGGACgCGCg -5'
12000 3' -59.6 NC_003278.1 + 4537 0.71 0.168142
Target:  5'- uGGCCGGCugGUGAGUucggcgccuaugGCGACgUGCugGCGUg -3'
miRNA:   3'- -CCGGUCG--UACUCG------------CGCUGgACG--CGCG- -5'
12000 3' -59.6 NC_003278.1 + 12919 0.71 0.172803
Target:  5'- uGGCCAGCGcccaGGGCGCuGACCUcgaccagcucGC-CGCg -3'
miRNA:   3'- -CCGGUCGUa---CUCGCG-CUGGA----------CGcGCG- -5'
12000 3' -59.6 NC_003278.1 + 29218 0.71 0.1747
Target:  5'- cGGCCAGCGaguucaagaagcgccUGcucGGCGUGGCCgccgGUGCGa -3'
miRNA:   3'- -CCGGUCGU---------------AC---UCGCGCUGGa---CGCGCg -5'
12000 3' -59.6 NC_003278.1 + 12958 0.71 0.177096
Target:  5'- uGGCCAGCAUGuuGGCGagagccgccucguUGACCcGCugGCGCc -3'
miRNA:   3'- -CCGGUCGUAC--UCGC-------------GCUGGaCG--CGCG- -5'
12000 3' -59.6 NC_003278.1 + 23285 0.71 0.177579
Target:  5'- uGGCgAGCGcguagcUGAGCGUGGCgCUGCcaCGCu -3'
miRNA:   3'- -CCGgUCGU------ACUCGCGCUG-GACGc-GCG- -5'
12000 3' -59.6 NC_003278.1 + 32983 0.71 0.179522
Target:  5'- cGGCCAGUgcgcggcacgacaacGgucgaugGAGCGUGGCCgaucCGCGCa -3'
miRNA:   3'- -CCGGUCG---------------Ua------CUCGCGCUGGac--GCGCG- -5'
12000 3' -59.6 NC_003278.1 + 16995 0.7 0.203253
Target:  5'- uGGUCAGCGgccaugGGGUGUG-CCUGUGCa- -3'
miRNA:   3'- -CCGGUCGUa-----CUCGCGCuGGACGCGcg -5'
12000 3' -59.6 NC_003278.1 + 13192 0.7 0.203253
Target:  5'- cGGCCgaGGCAUcgccGA-CGCGACCgucgGCgGCGCg -3'
miRNA:   3'- -CCGG--UCGUA----CUcGCGCUGGa---CG-CGCG- -5'
12000 3' -59.6 NC_003278.1 + 22954 0.7 0.208759
Target:  5'- cGGCCGGUGgcGGCaagacugccaGCGGCCUG-GCGCu -3'
miRNA:   3'- -CCGGUCGUacUCG----------CGCUGGACgCGCG- -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.