miRNA display CGI


Results 1 - 18 of 18 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
16322 3' -57.2 NC_004084.1 + 5012 0.66 0.627712
Target:  5'- aCGAgguCCUCGaggaguuGGUAGCCGcCCGACGAGg -3'
miRNA:   3'- cGCU---GGAGC-------CUAUCGGUcGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 7475 0.66 0.622282
Target:  5'- aGCGGCgaCGGcgAaggcgagacgagcaaGUCGGCCGACGGGg -3'
miRNA:   3'- -CGCUGgaGCCuaU---------------CGGUCGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 4406 0.66 0.58547
Target:  5'- aCGACUUCGGcgAGCU-GCUGuACGAAc -3'
miRNA:   3'- cGCUGGAGCCuaUCGGuCGGC-UGCUU- -5'
16322 3' -57.2 NC_004084.1 + 3815 0.67 0.55334
Target:  5'- gGCGACCUC-GAUccAGUCuucgucgacGCCGACGAc -3'
miRNA:   3'- -CGCUGGAGcCUA--UCGGu--------CGGCUGCUu -5'
16322 3' -57.2 NC_004084.1 + 11153 0.67 0.532212
Target:  5'- uCGACCUCGuaGUAGgC-GCCGGCGAGc -3'
miRNA:   3'- cGCUGGAGCc-UAUCgGuCGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 18127 0.67 0.532212
Target:  5'- cGCGAUC-CGGAUGGaCUGgaacgacgucGCCGGCGAGu -3'
miRNA:   3'- -CGCUGGaGCCUAUC-GGU----------CGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 19938 0.67 0.532212
Target:  5'- uCGACCagcucguccaggUUGGGUagAGCCGGCCGugGu- -3'
miRNA:   3'- cGCUGG------------AGCCUA--UCGGUCGGCugCuu -5'
16322 3' -57.2 NC_004084.1 + 18964 0.68 0.501093
Target:  5'- uCGGCgCUCGcGccAGUCGGCCGGCGGGg -3'
miRNA:   3'- cGCUG-GAGC-CuaUCGGUCGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 56603 0.69 0.422496
Target:  5'- cGCGGCgUCGuc--GCCGGUCGGCGAGu -3'
miRNA:   3'- -CGCUGgAGCcuauCGGUCGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 31665 0.69 0.413197
Target:  5'- cGCGACCUCucGAUGGCCGucgggaaguucGCUGugGGc -3'
miRNA:   3'- -CGCUGGAGc-CUAUCGGU-----------CGGCugCUu -5'
16322 3' -57.2 NC_004084.1 + 30337 0.7 0.404024
Target:  5'- uUGACCgUCGGcgAGgUGGCCGACGGc -3'
miRNA:   3'- cGCUGG-AGCCuaUCgGUCGGCUGCUu -5'
16322 3' -57.2 NC_004084.1 + 12902 0.7 0.394981
Target:  5'- gGCGuCCUCGGAgUGGCCGaCCGGCc-- -3'
miRNA:   3'- -CGCuGGAGCCU-AUCGGUcGGCUGcuu -5'
16322 3' -57.2 NC_004084.1 + 10688 0.71 0.335463
Target:  5'- aGCGACCguUCGGGUAGCCGGUgcuCGGu -3'
miRNA:   3'- -CGCUGG--AGCCUAUCGGUCGgcuGCUu -5'
16322 3' -57.2 NC_004084.1 + 22151 0.72 0.30451
Target:  5'- cCGuCCUUGaGGUAGcCCAGCUGGCGGAg -3'
miRNA:   3'- cGCuGGAGC-CUAUC-GGUCGGCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 10526 0.72 0.282767
Target:  5'- aGCGACCgUCGacguugccgAGCCAGCgGACGAGu -3'
miRNA:   3'- -CGCUGG-AGCcua------UCGGUCGgCUGCUU- -5'
16322 3' -57.2 NC_004084.1 + 39525 0.73 0.25832
Target:  5'- cGCGAcguccucgaggaucuCCUCGuGAUGGCCAGCgCGAuCGAc -3'
miRNA:   3'- -CGCU---------------GGAGC-CUAUCGGUCG-GCU-GCUu -5'
16322 3' -57.2 NC_004084.1 + 44668 0.75 0.177439
Target:  5'- cGCGACCUCGag-GGCgAGCCGAcCGGAc -3'
miRNA:   3'- -CGCUGGAGCcuaUCGgUCGGCU-GCUU- -5'
16322 3' -57.2 NC_004084.1 + 23099 1.07 0.000905
Target:  5'- gGCGACCUCGGAUAGCCAGCCGACGAAc -3'
miRNA:   3'- -CGCUGGAGCCUAUCGGUCGGCUGCUU- -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.