miRNA display CGI


Results 1 - 20 of 45 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
16263 3' -57.5 NC_004084.1 + 51629 1.08 0.000786
Target:  5'- uUGCCUUCGAGAACGUCCCCGCCGAGAc -3'
miRNA:   3'- -ACGGAAGCUCUUGCAGGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 8632 0.78 0.129315
Target:  5'- cGCgaUCGAGAACaccgaggcuguaGUCCUCGCCGAGGg -3'
miRNA:   3'- aCGgaAGCUCUUG------------CAGGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 14656 0.75 0.182796
Target:  5'- cGCCcagUCGAugcccgcGAGCGUCCCgGCCGGGu -3'
miRNA:   3'- aCGGa--AGCU-------CUUGCAGGGgCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 374 0.75 0.188167
Target:  5'- gUGCCgcgagccCGGGGACGUCgCCGCCGAu- -3'
miRNA:   3'- -ACGGaa-----GCUCUUGCAGgGGCGGCUcu -5'
16263 3' -57.5 NC_004084.1 + 21945 0.75 0.203523
Target:  5'- uUGUCggcgUCcGGAcgACGUCUCCGCCGAGAu -3'
miRNA:   3'- -ACGGa---AGcUCU--UGCAGGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 53434 0.73 0.262714
Target:  5'- aUGCC--CGAGuGgGUCCCCGCCGAu- -3'
miRNA:   3'- -ACGGaaGCUCuUgCAGGGGCGGCUcu -5'
16263 3' -57.5 NC_004084.1 + 21134 0.73 0.269347
Target:  5'- gGCCUcccaGAGGACGUCCUggauUGUCGAGAg -3'
miRNA:   3'- aCGGAag--CUCUUGCAGGG----GCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 46107 0.72 0.319574
Target:  5'- cGuUCUUCGAGAcCGUuucUCCCGCUGGGAg -3'
miRNA:   3'- aC-GGAAGCUCUuGCA---GGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 29073 0.71 0.327298
Target:  5'- cGCCcgcUCGGGGGCGUCgUCGCCGcGGu -3'
miRNA:   3'- aCGGa--AGCUCUUGCAGgGGCGGCuCU- -5'
16263 3' -57.5 NC_004084.1 + 15532 0.71 0.351292
Target:  5'- aGCUUUUGAGAGCuUCgCCUGCCG-GAg -3'
miRNA:   3'- aCGGAAGCUCUUGcAG-GGGCGGCuCU- -5'
16263 3' -57.5 NC_004084.1 + 5700 0.71 0.351292
Target:  5'- cGCUggguugagUUCGAGGACGUCgCUCggGCCGAGGu -3'
miRNA:   3'- aCGG--------AAGCUCUUGCAG-GGG--CGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 39428 0.71 0.359563
Target:  5'- cGCCagCGGGAccuACGacuUCCCCGCCGGc- -3'
miRNA:   3'- aCGGaaGCUCU---UGC---AGGGGCGGCUcu -5'
16263 3' -57.5 NC_004084.1 + 17818 0.7 0.367969
Target:  5'- aGCUUcacCGGGAAC-UCCUCGCCGAGu -3'
miRNA:   3'- aCGGAa--GCUCUUGcAGGGGCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 57109 0.7 0.385181
Target:  5'- cGCCUcgauccagUCGAGGACGUCCUcgguguCGCCGu-- -3'
miRNA:   3'- aCGGA--------AGCUCUUGCAGGG------GCGGCucu -5'
16263 3' -57.5 NC_004084.1 + 36243 0.7 0.385181
Target:  5'- cGCCUacCGGGucGACGUCCUcgagugCGCCGAGGc -3'
miRNA:   3'- aCGGAa-GCUC--UUGCAGGG------GCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 23125 0.7 0.393984
Target:  5'- cGUCgaaacgaUCGAGGACcUCCCCagcGCCGAGGa -3'
miRNA:   3'- aCGGa------AGCUCUUGcAGGGG---CGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 11231 0.69 0.424871
Target:  5'- gGCC-UCGAGAAgcCGUCCCggucagcaucccaguCGCCGuAGAg -3'
miRNA:   3'- aCGGaAGCUCUU--GCAGGG---------------GCGGC-UCU- -5'
16263 3' -57.5 NC_004084.1 + 57811 0.69 0.449441
Target:  5'- aGCUUcaacgaucaacUCGAGGGCGUCCUCaCCGaAGAg -3'
miRNA:   3'- aCGGA-----------AGCUCUUGCAGGGGcGGC-UCU- -5'
16263 3' -57.5 NC_004084.1 + 27957 0.69 0.459098
Target:  5'- cGCC-UCGuagaGGAACGUCCCCaG-CGGGAc -3'
miRNA:   3'- aCGGaAGC----UCUUGCAGGGG-CgGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 53340 0.69 0.459098
Target:  5'- cGUCUUCGAGGuggacuGCGUCgucuacUCCGCCGAc- -3'
miRNA:   3'- aCGGAAGCUCU------UGCAG------GGGCGGCUcu -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.