miRNA display CGI


Results 1 - 20 of 107 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
11999 5' -65.4 NC_003278.1 + 4256 0.66 0.207858
Target:  5'- aCGCUGCCGuCGAaauUCCCAUCCGUGacaacCGCc -3'
miRNA:   3'- -GCGGCGGCcGUU---GGGGUGGGCGC-----GCG- -5'
11999 5' -65.4 NC_003278.1 + 34586 0.68 0.140558
Target:  5'- aCGCCGCauuccugaggUGGCcauGCCaCCAgCCGuUGCGCa -3'
miRNA:   3'- -GCGGCG----------GCCGu--UGG-GGUgGGC-GCGCG- -5'
11999 5' -65.4 NC_003278.1 + 29963 0.68 0.136866
Target:  5'- uCGuuGCCGGCggUCUucuggccggucaCGCCCaaCGCGCg -3'
miRNA:   3'- -GCggCGGCCGuuGGG------------GUGGGc-GCGCG- -5'
11999 5' -65.4 NC_003278.1 + 9070 0.79 0.017932
Target:  5'- uGCCGCCGGCAuagCCGCCCGgGCGa -3'
miRNA:   3'- gCGGCGGCCGUuggGGUGGGCgCGCg -5'
11999 5' -65.4 NC_003278.1 + 2554 0.66 0.191981
Target:  5'- aGCCGCUcgaggGGCAGaCCCCcgcgaauACCgGC-CGCa -3'
miRNA:   3'- gCGGCGG-----CCGUU-GGGG-------UGGgCGcGCG- -5'
11999 5' -65.4 NC_003278.1 + 2482 0.66 0.18806
Target:  5'- cCGCCGCCaGCAGCCaguuacaguccaguCCGCCCagGaaggcgaguucauccCGCGCc -3'
miRNA:   3'- -GCGGCGGcCGUUGG--------------GGUGGG--C---------------GCGCG- -5'
11999 5' -65.4 NC_003278.1 + 4594 0.66 0.182784
Target:  5'- gCGCCgaacucaccaGCCGGcCAGgCCCACuuGaUGUGCu -3'
miRNA:   3'- -GCGG----------CGGCC-GUUgGGGUGggC-GCGCG- -5'
11999 5' -65.4 NC_003278.1 + 11899 0.66 0.178102
Target:  5'- gGUCGCCGGuCAACaCacggaCGCgCUGCGCGg -3'
miRNA:   3'- gCGGCGGCC-GUUG-Gg----GUG-GGCGCGCg -5'
11999 5' -65.4 NC_003278.1 + 2980 0.67 0.164688
Target:  5'- gCGCCuCCGGCGGuaCCGggcggcaaguUCCGCGUGCu -3'
miRNA:   3'- -GCGGcGGCCGUUggGGU----------GGGCGCGCG- -5'
11999 5' -65.4 NC_003278.1 + 19487 0.67 0.156257
Target:  5'- uGCCGgCGGCGGCCaUCugCUGagccaGUGCu -3'
miRNA:   3'- gCGGCgGCCGUUGG-GGugGGCg----CGCG- -5'
11999 5' -65.4 NC_003278.1 + 21478 0.67 0.160423
Target:  5'- cCGCCcagGUCGGCGAa--CACCCGCGacgGCg -3'
miRNA:   3'- -GCGG---CGGCCGUUgggGUGGGCGCg--CG- -5'
11999 5' -65.4 NC_003278.1 + 21072 0.67 0.173526
Target:  5'- gGuuGgCGGCcaGGCCCCACa-GCGCGa -3'
miRNA:   3'- gCggCgGCCG--UUGGGGUGggCGCGCg -5'
11999 5' -65.4 NC_003278.1 + 12341 0.66 0.207858
Target:  5'- gCGCCGcCCGGUauGACgCCG-CCGUGgGUa -3'
miRNA:   3'- -GCGGC-GGCCG--UUGgGGUgGGCGCgCG- -5'
11999 5' -65.4 NC_003278.1 + 22085 0.67 0.160423
Target:  5'- uCGUCGCC-GCGACCgacgaACUgGCGCGCc -3'
miRNA:   3'- -GCGGCGGcCGUUGGgg---UGGgCGCGCG- -5'
11999 5' -65.4 NC_003278.1 + 29706 0.66 0.207858
Target:  5'- -uUUGCCGGCAccgGCCUCGCCgGUG-GCc -3'
miRNA:   3'- gcGGCGGCCGU---UGGGGUGGgCGCgCG- -5'
11999 5' -65.4 NC_003278.1 + 2703 0.67 0.173526
Target:  5'- aCGCCgGCUGGacCGACCUgGCCCaG-GCGCu -3'
miRNA:   3'- -GCGG-CGGCC--GUUGGGgUGGG-CgCGCG- -5'
11999 5' -65.4 NC_003278.1 + 33257 0.67 0.160423
Target:  5'- cCGCaGCCGGCGgaaccgcauuGCCgauCCGCUCGCGC-Ca -3'
miRNA:   3'- -GCGgCGGCCGU----------UGG---GGUGGGCGCGcG- -5'
11999 5' -65.4 NC_003278.1 + 21312 0.68 0.137964
Target:  5'- aGCgCGCCGGCAggucgauGCCCagguaGCCCaggacgccggcgaagGCGCGg -3'
miRNA:   3'- gCG-GCGGCCGU-------UGGGg----UGGG---------------CGCGCg -5'
11999 5' -65.4 NC_003278.1 + 6082 0.66 0.192476
Target:  5'- -uCCaCCGGCGGCaggCCGCCCaUGCGCu -3'
miRNA:   3'- gcGGcGGCCGUUGg--GGUGGGcGCGCG- -5'
11999 5' -65.4 NC_003278.1 + 6727 0.66 0.187575
Target:  5'- uGCCGCCGGUcuuCUgUGCCUugaGCGCGg -3'
miRNA:   3'- gCGGCGGCCGuu-GGgGUGGG---CGCGCg -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.