miRNA display CGI


Results 1 - 20 of 32 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
20420 3' -56.5 NC_004688.1 + 11082 0.99 0.009828
Target:  5'- gCCGCUCGGCACGAUCA-CGGACGAUCg -3'
miRNA:   3'- -GGCGAGCCGUGCUAGUcGCCUGCUAG- -5'
20420 3' -56.5 NC_004688.1 + 42525 0.79 0.223954
Target:  5'- gCC-CUCGGCGCGGUauuucgaCAGCGaGGCGAUCg -3'
miRNA:   3'- -GGcGAGCCGUGCUA-------GUCGC-CUGCUAG- -5'
20420 3' -56.5 NC_004688.1 + 10662 0.75 0.367308
Target:  5'- gCGCUgGGgGCGGUCAGCGcGGCGuuGUCc -3'
miRNA:   3'- gGCGAgCCgUGCUAGUCGC-CUGC--UAG- -5'
20420 3' -56.5 NC_004688.1 + 62975 0.74 0.400721
Target:  5'- gUC-CUCGGCGCGG-CGGCGGA-GAUCa -3'
miRNA:   3'- -GGcGAGCCGUGCUaGUCGCCUgCUAG- -5'
20420 3' -56.5 NC_004688.1 + 56863 0.73 0.454309
Target:  5'- -aGCcCGGCGuCGAUCAGCGGcCGAa- -3'
miRNA:   3'- ggCGaGCCGU-GCUAGUCGCCuGCUag -5'
20420 3' -56.5 NC_004688.1 + 67596 0.73 0.482519
Target:  5'- gUCG-UCGGCgGCGGUCGGCGGGCugaGGUCc -3'
miRNA:   3'- -GGCgAGCCG-UGCUAGUCGCCUG---CUAG- -5'
20420 3' -56.5 NC_004688.1 + 17611 0.72 0.511549
Target:  5'- aUCG-UCGGCGCGAUCGGCGcggccGGCGcUCa -3'
miRNA:   3'- -GGCgAGCCGUGCUAGUCGC-----CUGCuAG- -5'
20420 3' -56.5 NC_004688.1 + 28560 0.72 0.521387
Target:  5'- cCUGCUCGGUcUGAUCGGUGG-UGAUg -3'
miRNA:   3'- -GGCGAGCCGuGCUAGUCGCCuGCUAg -5'
20420 3' -56.5 NC_004688.1 + 43951 0.72 0.541276
Target:  5'- gCGCaUCGGCAUGAcggCGGCGGGguaguUGAUCc -3'
miRNA:   3'- gGCG-AGCCGUGCUa--GUCGCCU-----GCUAG- -5'
20420 3' -56.5 NC_004688.1 + 4871 0.7 0.622801
Target:  5'- gCGCUCGGaaagGAUCGGCGuauCGAUCg -3'
miRNA:   3'- gGCGAGCCgug-CUAGUCGCcu-GCUAG- -5'
20420 3' -56.5 NC_004688.1 + 33868 0.7 0.643401
Target:  5'- gCCGUUacCGGCACcacCAGCGGGCGcgCc -3'
miRNA:   3'- -GGCGA--GCCGUGcuaGUCGCCUGCuaG- -5'
20420 3' -56.5 NC_004688.1 + 10137 0.69 0.684424
Target:  5'- gCGCUCuuGGCGCGGaacUCGGCGGucuCG-UCg -3'
miRNA:   3'- gGCGAG--CCGUGCU---AGUCGCCu--GCuAG- -5'
20420 3' -56.5 NC_004688.1 + 557 0.69 0.694592
Target:  5'- gCGC-CGGCACGGauggCAGauGACGAUg -3'
miRNA:   3'- gGCGaGCCGUGCUa---GUCgcCUGCUAg -5'
20420 3' -56.5 NC_004688.1 + 105395 0.69 0.718763
Target:  5'- aCCGaugaugaccauugCGGCAagGGUCGGCGGACcGUCa -3'
miRNA:   3'- -GGCga-----------GCCGUg-CUAGUCGCCUGcUAG- -5'
20420 3' -56.5 NC_004688.1 + 104867 0.68 0.724743
Target:  5'- aCCGCgCGGCGaugaGAUCu-UGGAUGAUCu -3'
miRNA:   3'- -GGCGaGCCGUg---CUAGucGCCUGCUAG- -5'
20420 3' -56.5 NC_004688.1 + 46114 0.68 0.744455
Target:  5'- --aCUCGGC-CGuuGUCgAGUGGACGAUCc -3'
miRNA:   3'- ggcGAGCCGuGC--UAG-UCGCCUGCUAG- -5'
20420 3' -56.5 NC_004688.1 + 2405 0.68 0.762814
Target:  5'- gCCaCUCGGCgcuucucucuGCGAUCGGCGGGucuucguagauuuCGAUg -3'
miRNA:   3'- -GGcGAGCCG----------UGCUAGUCGCCU-------------GCUAg -5'
20420 3' -56.5 NC_004688.1 + 19556 0.68 0.763769
Target:  5'- gCCGCUcaacguuuaagCGGCgACGAUCcucauGUGGACG-UCg -3'
miRNA:   3'- -GGCGA-----------GCCG-UGCUAGu----CGCCUGCuAG- -5'
20420 3' -56.5 NC_004688.1 + 31033 0.68 0.767578
Target:  5'- cCCGCcgaGGCugGcgagguugccaggucGUCGGCGuuGGCGAUCa -3'
miRNA:   3'- -GGCGag-CCGugC---------------UAGUCGC--CUGCUAG- -5'
20420 3' -56.5 NC_004688.1 + 96715 0.67 0.773254
Target:  5'- aCGcCUCGGcCGCGAUaggcaccccCGGCaGGGCGAUg -3'
miRNA:   3'- gGC-GAGCC-GUGCUA---------GUCG-CCUGCUAg -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.