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 + 28769 0.66 0.385931
Target:  5'- -aCCAGCGcuggauguucaucgaUGA-CGCGGCCgaGCGCGUc -3'
miRNA:   3'- ccGGUCGU---------------ACUcGCGCUGGa-CGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 32004 0.66 0.382341
Target:  5'- gGGCgaGGCAUGGGCuGaUGACCcgGUGcCGCu -3'
miRNA:   3'- -CCGg-UCGUACUCG-C-GCUGGa-CGC-GCG- -5'
12000 3' -59.6 NC_003278.1 + 32317 0.66 0.382341
Target:  5'- cGGCCgAGgAUGucGC-CGACg-GCGCGCa -3'
miRNA:   3'- -CCGG-UCgUACu-CGcGCUGgaCGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 19972 0.66 0.381447
Target:  5'- uGGaCAGCGgcaGGGUGCgGGCCUGUugccgcaGCGCc -3'
miRNA:   3'- -CCgGUCGUa--CUCGCG-CUGGACG-------CGCG- -5'
12000 3' -59.6 NC_003278.1 + 1 0.66 0.373463
Target:  5'- aGGCgUGGCG-GGGgGaCGA-CUGCGCGCg -3'
miRNA:   3'- -CCG-GUCGUaCUCgC-GCUgGACGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 13901 0.66 0.373463
Target:  5'- cGGUCAGCGagccgacGGGCuCGACCacGCgGCGCa -3'
miRNA:   3'- -CCGGUCGUa------CUCGcGCUGGa-CG-CGCG- -5'
12000 3' -59.6 NC_003278.1 + 9528 0.66 0.373463
Target:  5'- cGGCCugGGCca-GGCG-GGCCUGCGC-Ca -3'
miRNA:   3'- -CCGG--UCGuacUCGCgCUGGACGCGcG- -5'
12000 3' -59.6 NC_003278.1 + 19803 0.66 0.373463
Target:  5'- cGCCAuGCcgGuGC-CGGCCaGCGCGg -3'
miRNA:   3'- cCGGU-CGuaCuCGcGCUGGaCGCGCg -5'
12000 3' -59.6 NC_003278.1 + 22823 0.66 0.364726
Target:  5'- cGCCGGCGcuGGCG-GGCCUGC-CGa -3'
miRNA:   3'- cCGGUCGUacUCGCgCUGGACGcGCg -5'
12000 3' -59.6 NC_003278.1 + 9668 0.66 0.356132
Target:  5'- uGGCCAGCGccUG-GCGCaGCugCUGC-CGCu -3'
miRNA:   3'- -CCGGUCGU--ACuCGCGcUG--GACGcGCG- -5'
12000 3' -59.6 NC_003278.1 + 9019 0.66 0.356132
Target:  5'- cGGCCAGUugGUcGGCgGUGACCUGauCGUg -3'
miRNA:   3'- -CCGGUCG--UAcUCG-CGCUGGACgcGCG- -5'
12000 3' -59.6 NC_003278.1 + 18882 0.66 0.347681
Target:  5'- cGGCCuGCAccuGCuCGACCUGC-UGCa -3'
miRNA:   3'- -CCGGuCGUacuCGcGCUGGACGcGCG- -5'
12000 3' -59.6 NC_003278.1 + 21485 0.66 0.347681
Target:  5'- aGGCCGGCccgcUGGGCGUGA-UUGCaCGUc -3'
miRNA:   3'- -CCGGUCGu---ACUCGCGCUgGACGcGCG- -5'
12000 3' -59.6 NC_003278.1 + 21991 0.66 0.346008
Target:  5'- cGCCAGCAgcagccgcaucGGUGCccaGCCgGCGCGCc -3'
miRNA:   3'- cCGGUCGUac---------UCGCGc--UGGaCGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 22362 0.66 0.339374
Target:  5'- cGCCcGCGUGAcGgGCuACCUGaccaGCGCc -3'
miRNA:   3'- cCGGuCGUACU-CgCGcUGGACg---CGCG- -5'
12000 3' -59.6 NC_003278.1 + 9369 0.66 0.339374
Target:  5'- aGGCCAGCgcGUGAGCcu--UCUGCGC-Ca -3'
miRNA:   3'- -CCGGUCG--UACUCGcgcuGGACGCGcG- -5'
12000 3' -59.6 NC_003278.1 + 14090 0.66 0.339374
Target:  5'- gGGCCAGgAUGuccGGCGUGA--UGCGCa- -3'
miRNA:   3'- -CCGGUCgUAC---UCGCGCUggACGCGcg -5'
12000 3' -59.6 NC_003278.1 + 32622 0.66 0.339374
Target:  5'- uGCUGGUAUugcaGGGCGUuuGCCgGCGCGCg -3'
miRNA:   3'- cCGGUCGUA----CUCGCGc-UGGaCGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 20960 0.66 0.33691
Target:  5'- uGGCCGGCcUGuugaucggcccgcuGGUGacCGcCCUGCGCGUc -3'
miRNA:   3'- -CCGGUCGuAC--------------UCGC--GCuGGACGCGCG- -5'
12000 3' -59.6 NC_003278.1 + 21626 0.67 0.331212
Target:  5'- uGGCCAuGCu---GgGCGACCUGgGCa- -3'
miRNA:   3'- -CCGGU-CGuacuCgCGCUGGACgCGcg -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.