miRNA display CGI


Results 1 - 20 of 30 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
16355 3' -55.4 NC_004084.1 + 7924 0.66 0.751306
Target:  5'- cGGGucGAuCUCCUCGGUCAgUUGCUcgugcggcguUCCa -3'
miRNA:   3'- uCCC--CUuGAGGAGCUAGU-AGCGG----------AGG- -5'
16355 3' -55.4 NC_004084.1 + 38483 0.66 0.745141
Target:  5'- cGGGGuuGAACggauccucgcCCUCGAUCGUCGCgagcaucguucgaagUUCCu -3'
miRNA:   3'- -UCCC--CUUGa---------GGAGCUAGUAGCG---------------GAGG- -5'
16355 3' -55.4 NC_004084.1 + 10904 0.66 0.741008
Target:  5'- -cGGGuACUCC-CGAucggggaguUCGUCGUCUUCg -3'
miRNA:   3'- ucCCCuUGAGGaGCU---------AGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 5921 0.66 0.730603
Target:  5'- cAGGGGuAgUCUUCGAacgacaugacgUCGcgcuUCGCCUCg -3'
miRNA:   3'- -UCCCCuUgAGGAGCU-----------AGU----AGCGGAGg -5'
16355 3' -55.4 NC_004084.1 + 16368 0.66 0.729557
Target:  5'- uGGuGGAGCUCgguagaauccucaCUCGA-CAUCGgCCUCa -3'
miRNA:   3'- uCC-CCUUGAG-------------GAGCUaGUAGC-GGAGg -5'
16355 3' -55.4 NC_004084.1 + 31447 0.66 0.705258
Target:  5'- cAGGGuGACUgcCCUCGAggacggcagcacgCAUCGCUUCg -3'
miRNA:   3'- -UCCCcUUGA--GGAGCUa------------GUAGCGGAGg -5'
16355 3' -55.4 NC_004084.1 + 1844 0.67 0.676272
Target:  5'- cGGuGuGGCUCCUgcagcgcgacggaCGA-CGUCGCCUCCu -3'
miRNA:   3'- uCC-CcUUGAGGA-------------GCUaGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 35955 0.67 0.670865
Target:  5'- cGGGGucgGCggCCgugaccagucccgacUCGAUCAgcUCGUCUCCg -3'
miRNA:   3'- uCCCCu--UGa-GG---------------AGCUAGU--AGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 41055 0.67 0.666533
Target:  5'- cGGcGGAACggauguucuccUCaCUCGAgcccUCGCCUCCg -3'
miRNA:   3'- uCC-CCUUG-----------AG-GAGCUagu-AGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 17826 0.68 0.649161
Target:  5'- -cGGGAACUCCUCGccGaguucgauggugaccUCGUCGCC-Cg -3'
miRNA:   3'- ucCCCUUGAGGAGC--U---------------AGUAGCGGaGg -5'
16355 3' -55.4 NC_004084.1 + 16663 0.68 0.64481
Target:  5'- -cGGGAGgUCCUCGucgccggCGUCGUC-CCg -3'
miRNA:   3'- ucCCCUUgAGGAGCua-----GUAGCGGaGG- -5'
16355 3' -55.4 NC_004084.1 + 2391 0.68 0.64481
Target:  5'- -cGGGAcCUCCUCGAgc-UCGaUCUCCu -3'
miRNA:   3'- ucCCCUuGAGGAGCUaguAGC-GGAGG- -5'
16355 3' -55.4 NC_004084.1 + 39012 0.68 0.623043
Target:  5'- cGGGGAucacgACUCCgaaacCAUCGCCUgCCc -3'
miRNA:   3'- uCCCCU-----UGAGGagcuaGUAGCGGA-GG- -5'
16355 3' -55.4 NC_004084.1 + 54773 0.68 0.601306
Target:  5'- uGGGuGAGgaUCUCGAUCGugagccagccgaUCGCCUCg -3'
miRNA:   3'- uCCC-CUUgaGGAGCUAGU------------AGCGGAGg -5'
16355 3' -55.4 NC_004084.1 + 8705 0.68 0.590472
Target:  5'- cGGGGAGuucugcaagaacCUCCUCGGcgUCAcccucguggaugUCGCCggUCCa -3'
miRNA:   3'- uCCCCUU------------GAGGAGCU--AGU------------AGCGG--AGG- -5'
16355 3' -55.4 NC_004084.1 + 50547 0.69 0.568914
Target:  5'- gAGGagcGGAGuCUCCUCGAUCAUguCCgUCCa -3'
miRNA:   3'- -UCC---CCUU-GAGGAGCUAGUAgcGG-AGG- -5'
16355 3' -55.4 NC_004084.1 + 51510 0.69 0.568914
Target:  5'- gAGuGGGAGCUCgUCGAgacgGUCGCgaUCCc -3'
miRNA:   3'- -UC-CCCUUGAGgAGCUag--UAGCGg-AGG- -5'
16355 3' -55.4 NC_004084.1 + 14271 0.69 0.558207
Target:  5'- cAGGuGGAGgUCCUCG-UCGUCGCgagcggCUUCg -3'
miRNA:   3'- -UCC-CCUUgAGGAGCuAGUAGCG------GAGG- -5'
16355 3' -55.4 NC_004084.1 + 27978 0.69 0.558207
Target:  5'- cAGcGGGAcguCgUCCUCGc-CAUCGCUUCCg -3'
miRNA:   3'- -UC-CCCUu--G-AGGAGCuaGUAGCGGAGG- -5'
16355 3' -55.4 NC_004084.1 + 13924 0.7 0.505677
Target:  5'- cGcGGAACUCCUCG-UCAUCguuuaggcgaGCCUCa -3'
miRNA:   3'- uCcCCUUGAGGAGCuAGUAG----------CGGAGg -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.