miRNA display CGI


Results 1 - 17 of 17 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
18328 3' -60.8 NC_004681.1 + 66934 0.66 0.535143
Target:  5'- uCUGUGGCGGcccUGGUgCCgCGcGCCgagCUCg -3'
miRNA:   3'- -GGUACCGCC---AUCAgGGgGC-CGGa--GAG- -5'
18328 3' -60.8 NC_004681.1 + 9654 0.66 0.535143
Target:  5'- uUCGUGaGgGGgccgGGUCaCCUCGGCCccCUCa -3'
miRNA:   3'- -GGUAC-CgCCa---UCAG-GGGGCCGGa-GAG- -5'
18328 3' -60.8 NC_004681.1 + 51340 0.66 0.515253
Target:  5'- ---gGGCGGUagaAGUCCUCgGGCUugagaaUCUCc -3'
miRNA:   3'- gguaCCGCCA---UCAGGGGgCCGG------AGAG- -5'
18328 3' -60.8 NC_004681.1 + 3022 0.67 0.486004
Target:  5'- gCGUGGCGGUGccGUCgCCCaGCCa--- -3'
miRNA:   3'- gGUACCGCCAU--CAGgGGGcCGGagag -5'
18328 3' -60.8 NC_004681.1 + 16529 0.67 0.476429
Target:  5'- -gGUGGCGGcaacGGUCCCCacggCGGCCg--- -3'
miRNA:   3'- ggUACCGCCa---UCAGGGG----GCCGGagag -5'
18328 3' -60.8 NC_004681.1 + 52158 0.67 0.439112
Target:  5'- aCAUGGUGGUGGUCCU--GGCaucacagCUCa -3'
miRNA:   3'- gGUACCGCCAUCAGGGggCCGga-----GAG- -5'
18328 3' -60.8 NC_004681.1 + 8902 0.67 0.439112
Target:  5'- uCCAgcuccuggcUGGCGGcgGGUaCCCCGGCgUCa- -3'
miRNA:   3'- -GGU---------ACCGCCa-UCAgGGGGCCGgAGag -5'
18328 3' -60.8 NC_004681.1 + 56229 0.68 0.42109
Target:  5'- ---cGGCGGUGGUUCUccagguagCCGGUCUCg- -3'
miRNA:   3'- gguaCCGCCAUCAGGG--------GGCCGGAGag -5'
18328 3' -60.8 NC_004681.1 + 20483 0.68 0.42109
Target:  5'- cUCA-GGCGGgccGUCUUCCGGCUUCg- -3'
miRNA:   3'- -GGUaCCGCCau-CAGGGGGCCGGAGag -5'
18328 3' -60.8 NC_004681.1 + 64769 0.68 0.403521
Target:  5'- gCCuucgGGCGGUGGgcaUUCCGGUCgUCUCg -3'
miRNA:   3'- -GGua--CCGCCAUCag-GGGGCCGG-AGAG- -5'
18328 3' -60.8 NC_004681.1 + 23706 0.68 0.403521
Target:  5'- aCCAggaggaGGCGGaUGGccaCCCCCGuGCC-CUCg -3'
miRNA:   3'- -GGUa-----CCGCC-AUCa--GGGGGC-CGGaGAG- -5'
18328 3' -60.8 NC_004681.1 + 62561 0.69 0.369811
Target:  5'- aCCGUGG-GGUcGUgCCCCuCGGCCaUUCg -3'
miRNA:   3'- -GGUACCgCCAuCA-GGGG-GCCGGaGAG- -5'
18328 3' -60.8 NC_004681.1 + 45016 0.69 0.338078
Target:  5'- gCGUGGgGGcgAGcUCUuuGGCCUCUCg -3'
miRNA:   3'- gGUACCgCCa-UCaGGGggCCGGAGAG- -5'
18328 3' -60.8 NC_004681.1 + 12089 0.7 0.315607
Target:  5'- aCGUGGCcGaGGUCCgCCCGcGCgUCUCg -3'
miRNA:   3'- gGUACCGcCaUCAGG-GGGC-CGgAGAG- -5'
18328 3' -60.8 NC_004681.1 + 2930 0.7 0.294282
Target:  5'- aCCGUGuaGCGGcGGUCCCCgCGGgCUC-Cg -3'
miRNA:   3'- -GGUAC--CGCCaUCAGGGG-GCCgGAGaG- -5'
18328 3' -60.8 NC_004681.1 + 14951 0.72 0.24893
Target:  5'- aCCAgGGUGGUGGUCagaCCguucaUGGCCUCUUc -3'
miRNA:   3'- -GGUaCCGCCAUCAGg--GG-----GCCGGAGAG- -5'
18328 3' -60.8 NC_004681.1 + 58327 1.09 0.000457
Target:  5'- uCCAUGGCGGUAGUCCCCCGGCCUCUCc -3'
miRNA:   3'- -GGUACCGCCAUCAGGGGGCCGGAGAG- -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.