miRNA display CGI


Results 1 - 20 of 50 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
16998 3' -53.6 NC_004333.2 + 46077 1.12 0.000884
Target:  5'- uCGAGGCGAUGCUCGCGUACAACUCGCu -3'
miRNA:   3'- -GCUCCGCUACGAGCGCAUGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 42040 0.8 0.142451
Target:  5'- gCGGGGCG-UGCUCGCcgaaaGCGACUCGUa -3'
miRNA:   3'- -GCUCCGCuACGAGCGca---UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 6822 0.74 0.350221
Target:  5'- -cGGGCGcGUGCUCGagcgccacaCGUACAcACUCGCg -3'
miRNA:   3'- gcUCCGC-UACGAGC---------GCAUGU-UGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 9501 0.74 0.350221
Target:  5'- gCGcGGCGGccagcUGCUCGacgaaGUACGACUUGCc -3'
miRNA:   3'- -GCuCCGCU-----ACGAGCg----CAUGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 17037 0.74 0.358793
Target:  5'- gGGcGGCGAUgcauucgccggGCUCGCGcgcgagcaGCAACUCGCg -3'
miRNA:   3'- gCU-CCGCUA-----------CGAGCGCa-------UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 38254 0.74 0.358793
Target:  5'- gCGcGGCGAccUGCUCGUGUGgGACggucaCGCg -3'
miRNA:   3'- -GCuCCGCU--ACGAGCGCAUgUUGa----GCG- -5'
16998 3' -53.6 NC_004333.2 + 37541 0.72 0.422793
Target:  5'- cCGGuGCGcUGCUCGUGcguCAGCUCGCc -3'
miRNA:   3'- -GCUcCGCuACGAGCGCau-GUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 32294 0.72 0.432482
Target:  5'- aCGAuGGCGGUcacggcggcucGCUCGCGg---GCUCGCa -3'
miRNA:   3'- -GCU-CCGCUA-----------CGAGCGCauguUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 41734 0.72 0.452241
Target:  5'- aCGAGGaGAUcggCGCGgGCGACUCGCg -3'
miRNA:   3'- -GCUCCgCUAcgaGCGCaUGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 33396 0.71 0.472483
Target:  5'- aGAacGGCGAUGCcUGCGgcgcaGCGACUgCGCg -3'
miRNA:   3'- gCU--CCGCUACGaGCGCa----UGUUGA-GCG- -5'
16998 3' -53.6 NC_004333.2 + 40868 0.71 0.482775
Target:  5'- --cGGCGAUGgUCGC--GCGACUCGg -3'
miRNA:   3'- gcuCCGCUACgAGCGcaUGUUGAGCg -5'
16998 3' -53.6 NC_004333.2 + 45899 0.71 0.482775
Target:  5'- aCGAGGCGcucucgagGUGCUugccgagcuggcCGCGUugcgcgagaaGCAGCUCGUc -3'
miRNA:   3'- -GCUCCGC--------UACGA------------GCGCA----------UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 42309 0.71 0.514268
Target:  5'- cCGAGGCGua--UCGCGUGCuguuGCagCGCg -3'
miRNA:   3'- -GCUCCGCuacgAGCGCAUGu---UGa-GCG- -5'
16998 3' -53.6 NC_004333.2 + 41599 0.7 0.524953
Target:  5'- uGGcGGCGAUGCgggcuuucgCGCGUACGcgcGC-CGCu -3'
miRNA:   3'- gCU-CCGCUACGa--------GCGCAUGU---UGaGCG- -5'
16998 3' -53.6 NC_004333.2 + 1255 0.7 0.540051
Target:  5'- gCGAGGCuucgcGgcGCUCGCGgcgcUGCAgcaugaacagcaggcGCUCGCg -3'
miRNA:   3'- -GCUCCG-----CuaCGAGCGC----AUGU---------------UGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 2859 0.7 0.546566
Target:  5'- gCGuuGCGgcGUUCGCGaACGACgUCGCa -3'
miRNA:   3'- -GCucCGCuaCGAGCGCaUGUUG-AGCG- -5'
16998 3' -53.6 NC_004333.2 + 4575 0.69 0.623955
Target:  5'- cCGGGuaGCGAuucuUGCUCGCGc---ACUCGCg -3'
miRNA:   3'- -GCUC--CGCU----ACGAGCGCauguUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 18187 0.68 0.646273
Target:  5'- -cGGGUGAUGCgcucgucgUGCGcGCGGCaUCGCa -3'
miRNA:   3'- gcUCCGCUACGa-------GCGCaUGUUG-AGCG- -5'
16998 3' -53.6 NC_004333.2 + 19143 0.68 0.646273
Target:  5'- gCGGcGCGGUGCUCGCGcugguuaucgUGCuAGC-CGCg -3'
miRNA:   3'- -GCUcCGCUACGAGCGC----------AUG-UUGaGCG- -5'
16998 3' -53.6 NC_004333.2 + 9860 0.68 0.646273
Target:  5'- uCGAGGCGcauuucgccgGUcGC-CGCGUGCAcGgUCGCg -3'
miRNA:   3'- -GCUCCGC----------UA-CGaGCGCAUGU-UgAGCG- -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.