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 + 29796 0.67 0.760722
Target:  5'- cAGCUCGGGCcaguaGCUGgaagucugcggGugUGCGCGGCg -3'
miRNA:   3'- -UCGAGCUCGcg---UGAC-----------UugAUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 28538 0.69 0.635232
Target:  5'- cGCUCacGCGCGCcGGGCUGCugAAUu -3'
miRNA:   3'- uCGAGcuCGCGUGaCUUGAUGugUUG- -5'
28148 3' -51.3 NC_005887.1 + 11548 0.69 0.64691
Target:  5'- cAGCUCG-GCGCGC--AGC-GCGCGGCg -3'
miRNA:   3'- -UCGAGCuCGCGUGacUUGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 13091 0.69 0.658573
Target:  5'- cGCUCGAuCGCGgaGuGCUGCAgGGCg -3'
miRNA:   3'- uCGAGCUcGCGUgaCuUGAUGUgUUG- -5'
28148 3' -51.3 NC_005887.1 + 4103 0.69 0.670208
Target:  5'- cGGCaUCGAGUucGCGCaGGAC-ACGCGGCa -3'
miRNA:   3'- -UCG-AGCUCG--CGUGaCUUGaUGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 15596 0.69 0.681803
Target:  5'- aAGCUgagaCGcAGCGCAC-GGGCgucGCGCAGCa -3'
miRNA:   3'- -UCGA----GC-UCGCGUGaCUUGa--UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 41925 0.68 0.716215
Target:  5'- uGCU-GAGCGgcucgcaGCUGAGCUGCcCGGCg -3'
miRNA:   3'- uCGAgCUCGCg------UGACUUGAUGuGUUG- -5'
28148 3' -51.3 NC_005887.1 + 4017 0.68 0.737596
Target:  5'- cGUUCcGGCGCGCUGAAUUGggguggcCugAACg -3'
miRNA:   3'- uCGAGcUCGCGUGACUUGAU-------GugUUG- -5'
28148 3' -51.3 NC_005887.1 + 17550 0.67 0.749784
Target:  5'- cGgUCGGcGCGUACUgGAACUacgugaccgGCGCGACg -3'
miRNA:   3'- uCgAGCU-CGCGUGA-CUUGA---------UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 16243 0.69 0.630559
Target:  5'- cGGCcggCGAGCGCACgggcaccgucgccGAGCUgAUGCAGCa -3'
miRNA:   3'- -UCGa--GCUCGCGUGa------------CUUGA-UGUGUUG- -5'
28148 3' -51.3 NC_005887.1 + 4249 0.69 0.62355
Target:  5'- cGCUCGGcCGCACgcagucUGAACUGCuCGGCc -3'
miRNA:   3'- uCGAGCUcGCGUG------ACUUGAUGuGUUG- -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 + 40159 0.75 0.313968
Target:  5'- cGCUCGccGCGUG-UGAGCUGCGCGACg -3'
miRNA:   3'- uCGAGCu-CGCGUgACUUGAUGUGUUG- -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 + 27649 0.71 0.518949
Target:  5'- cAGUU-GuGCGCGCUGAGCUgccgcgcGCGCGGCu -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' 
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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.