miRNA display CGI


Results 1 - 20 of 61 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
28148 3' -51.3 NC_005887.1 + 21192 1.09 0.0015
Target:  5'- cAGCUCGAGCGCACUGAACUACACAACc -3'
miRNA:   3'- -UCGAGCUCGCGUGACUUGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 40631 0.8 0.161262
Target:  5'- uGCUCGAGCGCGCcgaGAACUcguGCGCGAg -3'
miRNA:   3'- uCGAGCUCGCGUGa--CUUGA---UGUGUUg -5'
28148 3' -51.3 NC_005887.1 + 15950 0.79 0.186262
Target:  5'- cGCgUCGAGCGCACcGAGCUGCugGuGCg -3'
miRNA:   3'- uCG-AGCUCGCGUGaCUUGAUGugU-UG- -5'
28148 3' -51.3 NC_005887.1 + 12796 0.76 0.274945
Target:  5'- cGGCgcgaUCGAGCGCAuuCUGcuGCUGCGCGACc -3'
miRNA:   3'- -UCG----AGCUCGCGU--GACu-UGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 40159 0.75 0.313968
Target:  5'- cGCUCGccGCGUG-UGAGCUGCGCGACg -3'
miRNA:   3'- uCGAGCu-CGCGUgACUUGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 15066 0.75 0.348104
Target:  5'- cAGCUCGGGCgGCACgccugcGGcCUGCGCGGCc -3'
miRNA:   3'- -UCGAGCUCG-CGUGa-----CUuGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 1695 0.75 0.348104
Target:  5'- gAGCaCGAGCGCA---AGCUGCGCGGCa -3'
miRNA:   3'- -UCGaGCUCGCGUgacUUGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 15889 0.73 0.423984
Target:  5'- cAGCUCG-GUGCGCUcGAC-GCGCAGCu -3'
miRNA:   3'- -UCGAGCuCGCGUGAcUUGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 22782 0.73 0.444447
Target:  5'- uGGCUCGAcgccgGCGCggccGCUguuguucacGAGCUACGCGGCg -3'
miRNA:   3'- -UCGAGCU-----CGCG----UGA---------CUUGAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 30994 0.72 0.476146
Target:  5'- cGC-CGAGCGCGCUG---UGCACAAg -3'
miRNA:   3'- uCGaGCUCGCGUGACuugAUGUGUUg -5'
28148 3' -51.3 NC_005887.1 + 495 0.72 0.48696
Target:  5'- gGGUUCGAGCGCAgcaacagcGGGCgGCGCGGCg -3'
miRNA:   3'- -UCGAGCUCGCGUga------CUUGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 15722 0.71 0.508928
Target:  5'- gAGCUCG-GCGCGCaucuGCgACACGGCg -3'
miRNA:   3'- -UCGAGCuCGCGUGacu-UGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 27649 0.71 0.518949
Target:  5'- cAGUU-GuGCGCGCUGAGCUgccgcgcGCGCGGCu -3'
miRNA:   3'- -UCGAgCuCGCGUGACUUGA-------UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 8173 0.71 0.531301
Target:  5'- cGGCgccucggCGAGCGCGgcGAGCUGCGCGcGCg -3'
miRNA:   3'- -UCGa------GCUCGCGUgaCUUGAUGUGU-UG- -5'
28148 3' -51.3 NC_005887.1 + 1307 0.71 0.554022
Target:  5'- cGUUUucGCGUGCUGAGCgccGCGCAGCg -3'
miRNA:   3'- uCGAGcuCGCGUGACUUGa--UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 17607 0.7 0.565491
Target:  5'- cGCUCGcGCGCAagaUGGaaacGCUgcGCACGACg -3'
miRNA:   3'- uCGAGCuCGCGUg--ACU----UGA--UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 38403 0.7 0.588602
Target:  5'- cGGUUCGgucAGUGCGCUGcgUUAgGCAACg -3'
miRNA:   3'- -UCGAGC---UCGCGUGACuuGAUgUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 24421 0.7 0.616545
Target:  5'- gAGCUCGuucguGCGCACgcaggucgcgagcaGGAC-ACGCAGCa -3'
miRNA:   3'- -UCGAGCu----CGCGUGa-------------CUUGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 3470 0.69 0.62355
Target:  5'- uGUUCGggccuGGCGCGCUGAugaucgaGCACGACg -3'
miRNA:   3'- uCGAGC-----UCGCGUGACUuga----UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 4249 0.69 0.62355
Target:  5'- cGCUCGGcCGCACgcagucUGAACUGCuCGGCc -3'
miRNA:   3'- uCGAGCUcGCGUG------ACUUGAUGuGUUG- -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.