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
21379 3' -52.6 NC_004812.1 + 64148 0.66 0.988553
Target:  5'- aCAUUauGGCGGGgagUGUCGGGUCgGgucGGg -3'
miRNA:   3'- -GUAG--UCGCUCaa-GCAGCUCAGgCa--CC- -5'
21379 3' -52.6 NC_004812.1 + 101382 0.66 0.988553
Target:  5'- gCGUCGGCGAGgaaGUUGAcGg-CGUGGu -3'
miRNA:   3'- -GUAGUCGCUCaagCAGCU-CagGCACC- -5'
21379 3' -52.6 NC_004812.1 + 32063 0.66 0.987051
Target:  5'- -cUCGGCG---UCGUCGcggGGcCCGUGGg -3'
miRNA:   3'- guAGUCGCucaAGCAGC---UCaGGCACC- -5'
21379 3' -52.6 NC_004812.1 + 95990 0.67 0.971951
Target:  5'- cCGUCGGCGGGgaCG-CG-GUCCGccGGa -3'
miRNA:   3'- -GUAGUCGCUCaaGCaGCuCAGGCa-CC- -5'
21379 3' -52.6 NC_004812.1 + 144416 0.67 0.971951
Target:  5'- uCAUCAGCGAGcauauacUGUCGGcccUCCGUGa -3'
miRNA:   3'- -GUAGUCGCUCaa-----GCAGCUc--AGGCACc -5'
21379 3' -52.6 NC_004812.1 + 4983 0.68 0.965931
Target:  5'- ---aGGCGGGggCGaCGGGUCCG-GGu -3'
miRNA:   3'- guagUCGCUCaaGCaGCUCAGGCaCC- -5'
21379 3' -52.6 NC_004812.1 + 105283 0.68 0.95128
Target:  5'- aCGUCGGCcucuacUUCGUCG-GUgCCGUGGg -3'
miRNA:   3'- -GUAGUCGcuc---AAGCAGCuCA-GGCACC- -5'
21379 3' -52.6 NC_004812.1 + 41483 0.68 0.95128
Target:  5'- uCGUCAGgGAG-UCGUCGcG-CCGUGc -3'
miRNA:   3'- -GUAGUCgCUCaAGCAGCuCaGGCACc -5'
21379 3' -52.6 NC_004812.1 + 81987 0.68 0.949615
Target:  5'- ---gGGCGGGggcCGUCGAGgagcugggcguggCCGUGGa -3'
miRNA:   3'- guagUCGCUCaa-GCAGCUCa------------GGCACC- -5'
21379 3' -52.6 NC_004812.1 + 37283 0.69 0.942575
Target:  5'- --gCAGCGGGUgggccguguccgUCGcCGGaUCCGUGGg -3'
miRNA:   3'- guaGUCGCUCA------------AGCaGCUcAGGCACC- -5'
21379 3' -52.6 NC_004812.1 + 70746 0.69 0.932918
Target:  5'- --cCAGCGAGgagUCGucugaugcgucaUCGAGUUCGUcGGg -3'
miRNA:   3'- guaGUCGCUCa--AGC------------AGCUCAGGCA-CC- -5'
21379 3' -52.6 NC_004812.1 + 35014 0.69 0.927727
Target:  5'- gGUCGGCGAGcUCGgCGGGggcCCGgGGg -3'
miRNA:   3'- gUAGUCGCUCaAGCaGCUCa--GGCaCC- -5'
21379 3' -52.6 NC_004812.1 + 113255 0.7 0.916622
Target:  5'- gCGUCAGCGAGagcUUCGccCGcAGcgCCGUGGc -3'
miRNA:   3'- -GUAGUCGCUC---AAGCa-GC-UCa-GGCACC- -5'
21379 3' -52.6 NC_004812.1 + 139938 0.7 0.891544
Target:  5'- gGUCGGCGGGUUCuGgggCGGGgggCCG-GGa -3'
miRNA:   3'- gUAGUCGCUCAAG-Ca--GCUCa--GGCaCC- -5'
21379 3' -52.6 NC_004812.1 + 43506 0.7 0.891544
Target:  5'- cCAUCAGCGAGgggggCGU-GGGUCCGccgcGGc -3'
miRNA:   3'- -GUAGUCGCUCaa---GCAgCUCAGGCa---CC- -5'
21379 3' -52.6 NC_004812.1 + 42054 0.71 0.887459
Target:  5'- cCGUCAGCGAGUUCGugcaggugaagcacaUCGAccgcGUCCGc-- -3'
miRNA:   3'- -GUAGUCGCUCAAGC---------------AGCU----CAGGCacc -5'
21379 3' -52.6 NC_004812.1 + 44099 0.81 0.379365
Target:  5'- cCAUCgccgAGCGAGUcugggUCGUCGGGUCCGgGGg -3'
miRNA:   3'- -GUAG----UCGCUCA-----AGCAGCUCAGGCaCC- -5'
21379 3' -52.6 NC_004812.1 + 144161 1.12 0.005123
Target:  5'- aCAUCAGCGAGUUCGUCGAGUCCGUGGa -3'
miRNA:   3'- -GUAGUCGCUCAAGCAGCUCAGGCACC- -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.