miRNA display CGI


Results 1 - 6 of 6 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
23507 3' -54.2 NC_005259.1 + 50269 0.66 0.78491
Target:  5'- aCUCgcuGUCGUCGG-UGGCgggaacGUCGUGCa- -3'
miRNA:   3'- -GAG---UAGCGGCUaACCGa-----CAGCACGag -5'
23507 3' -54.2 NC_005259.1 + 51409 0.67 0.774961
Target:  5'- -aCAUCGCCGAggGGCcgGUUGaGgUCu -3'
miRNA:   3'- gaGUAGCGGCUaaCCGa-CAGCaCgAG- -5'
23507 3' -54.2 NC_005259.1 + 1406 0.67 0.733812
Target:  5'- uCUCAUaCGacCCGAgcacGGCauacGUCGUGCUCg -3'
miRNA:   3'- -GAGUA-GC--GGCUaa--CCGa---CAGCACGAG- -5'
23507 3' -54.2 NC_005259.1 + 41940 0.68 0.701842
Target:  5'- -aCGUCGCuUGGUUGuGCUGcCGUccGCUCg -3'
miRNA:   3'- gaGUAGCG-GCUAAC-CGACaGCA--CGAG- -5'
23507 3' -54.2 NC_005259.1 + 63382 0.7 0.593593
Target:  5'- cCUCGUCGCCGA-UGGCccacgccgaccaaugGUUGcccuUGCUCa -3'
miRNA:   3'- -GAGUAGCGGCUaACCGa--------------CAGC----ACGAG- -5'
23507 3' -54.2 NC_005259.1 + 17083 0.73 0.408109
Target:  5'- gUCAggcCGCCGAUauugGGCUGUCGaucaUGUUCa -3'
miRNA:   3'- gAGUa--GCGGCUAa---CCGACAGC----ACGAG- -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.