miRNA display CGI


Results 1 - 15 of 15 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
2975 5' -57.1 NC_001493.1 + 107983 0.66 0.858206
Target:  5'- -aUCGCGGagaaacgagggggaCCcCCCgUGUCCGCG-GUCa -3'
miRNA:   3'- gaAGUGCC--------------GGaGGG-ACAGGUGCuCAG- -5'
2975 5' -57.1 NC_001493.1 + 35871 0.66 0.852758
Target:  5'- -gUCACGGCCUUuuUcUCgGCGAuGUCc -3'
miRNA:   3'- gaAGUGCCGGAGggAcAGgUGCU-CAG- -5'
2975 5' -57.1 NC_001493.1 + 43343 0.66 0.819818
Target:  5'- --aUACGGUCUCCCaugugaugGUCCACaGGUg -3'
miRNA:   3'- gaaGUGCCGGAGGGa-------CAGGUGcUCAg -5'
2975 5' -57.1 NC_001493.1 + 48535 0.66 0.819818
Target:  5'- --cCAUGGUCUCCCgguagagguuucUGUCCGcCGGcGUCg -3'
miRNA:   3'- gaaGUGCCGGAGGG------------ACAGGU-GCU-CAG- -5'
2975 5' -57.1 NC_001493.1 + 9313 0.66 0.818958
Target:  5'- -aUCACGGCCUCCCcccucgCCgccauccccgggaGCGcGGUCg -3'
miRNA:   3'- gaAGUGCCGGAGGGaca---GG-------------UGC-UCAG- -5'
2975 5' -57.1 NC_001493.1 + 124867 0.66 0.818958
Target:  5'- -aUCACGGCCUCCCcccucgCCgccauccccgggaGCGcGGUCg -3'
miRNA:   3'- gaAGUGCCGGAGGGaca---GG-------------UGC-UCAG- -5'
2975 5' -57.1 NC_001493.1 + 102543 0.67 0.811137
Target:  5'- cCUUCGacCGGCgCgggCCCUGUCCAcuucuCGAGg- -3'
miRNA:   3'- -GAAGU--GCCG-Ga--GGGACAGGU-----GCUCag -5'
2975 5' -57.1 NC_001493.1 + 42257 0.67 0.774872
Target:  5'- --gCGCGGCgaCCCUGUCCGCc---- -3'
miRNA:   3'- gaaGUGCCGgaGGGACAGGUGcucag -5'
2975 5' -57.1 NC_001493.1 + 7591 0.68 0.716827
Target:  5'- --cCGCGGCuCUCCCUGU--GCG-GUCa -3'
miRNA:   3'- gaaGUGCCG-GAGGGACAggUGCuCAG- -5'
2975 5' -57.1 NC_001493.1 + 123145 0.68 0.716827
Target:  5'- --cCGCGGCuCUCCCUGU--GCG-GUCa -3'
miRNA:   3'- gaaGUGCCG-GAGGGACAggUGCuCAG- -5'
2975 5' -57.1 NC_001493.1 + 106655 0.69 0.705844
Target:  5'- gUUC-UGGCUcuugauaUCCCUGUgCAUGAGUCc -3'
miRNA:   3'- gAAGuGCCGG-------AGGGACAgGUGCUCAG- -5'
2975 5' -57.1 NC_001493.1 + 104008 0.7 0.645939
Target:  5'- uCUUCACuGGCauCUCCCcgaUGUCCACcGGGUa -3'
miRNA:   3'- -GAAGUG-CCG--GAGGG---ACAGGUG-CUCAg -5'
2975 5' -57.1 NC_001493.1 + 70795 0.71 0.564376
Target:  5'- gUUCACGGCgcuaUCCCUGUCCA---GUCc -3'
miRNA:   3'- gAAGUGCCGg---AGGGACAGGUgcuCAG- -5'
2975 5' -57.1 NC_001493.1 + 107519 0.71 0.551316
Target:  5'- -gUCGCGcGUCUCCCUGUggugucguacgacaCgACGGGUCg -3'
miRNA:   3'- gaAGUGC-CGGAGGGACA--------------GgUGCUCAG- -5'
2975 5' -57.1 NC_001493.1 + 95981 1.1 0.001766
Target:  5'- uCUUCACGGCCUCCCUGUCCACGAGUCg -3'
miRNA:   3'- -GAAGUGCCGGAGGGACAGGUGCUCAG- -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.