miRNA display CGI


Results 1 - 15 of 15 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
28506 3' -56.8 NC_005946.1 + 34283 0.66 0.75156
Target:  5'- --uGAGGCUGAGGaCCccCAGGCaCCc -3'
miRNA:   3'- uuuCUCCGACUCCaGGcaGUUCG-GGc -5'
28506 3' -56.8 NC_005946.1 + 64149 0.67 0.741587
Target:  5'- -uAGAGGUccaggauggUGGGGuaUCCGUCGGGaCCCc -3'
miRNA:   3'- uuUCUCCG---------ACUCC--AGGCAGUUC-GGGc -5'
28506 3' -56.8 NC_005946.1 + 32029 0.67 0.711101
Target:  5'- aGGAGAGGgUGGuGGUgCCucacaUCAGGCCCGc -3'
miRNA:   3'- -UUUCUCCgACU-CCA-GGc----AGUUCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 23488 0.67 0.700782
Target:  5'- cGGGAGGCagGAGaaacGUCCuucccuUCAGGCCCGa -3'
miRNA:   3'- uUUCUCCGa-CUC----CAGGc-----AGUUCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 22911 0.68 0.679972
Target:  5'- gGGAGuccacGGCaUGGGGUCCG--GAGCCCa -3'
miRNA:   3'- -UUUCu----CCG-ACUCCAGGCagUUCGGGc -5'
28506 3' -56.8 NC_005946.1 + 3841 0.68 0.669499
Target:  5'- ---cAGGCUGGGGUCC---AGGCCCc -3'
miRNA:   3'- uuucUCCGACUCCAGGcagUUCGGGc -5'
28506 3' -56.8 NC_005946.1 + 23303 0.68 0.658994
Target:  5'- -cGGAGGCUGucccaacGUCCugcccuUCAGGCCCGa -3'
miRNA:   3'- uuUCUCCGACuc-----CAGGc-----AGUUCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 92024 0.68 0.65689
Target:  5'- gGGGGAGGgUGAGcuaccucaaagCCGcCAGGCCCGa -3'
miRNA:   3'- -UUUCUCCgACUCca---------GGCaGUUCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 33091 0.68 0.637925
Target:  5'- cAGGGAGGUUGugcuGGccaCCGUCAGGCUgGg -3'
miRNA:   3'- -UUUCUCCGACu---CCa--GGCAGUUCGGgC- -5'
28506 3' -56.8 NC_005946.1 + 43926 0.69 0.595795
Target:  5'- gGAGGAGGCUGGGG-CUGcCc-GCCCu -3'
miRNA:   3'- -UUUCUCCGACUCCaGGCaGuuCGGGc -5'
28506 3' -56.8 NC_005946.1 + 22022 0.7 0.554113
Target:  5'- cAAGAcaGGgUGAGGggggCCGUguGGCCCGu -3'
miRNA:   3'- uUUCU--CCgACUCCa---GGCAguUCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 82849 0.7 0.513336
Target:  5'- -cGGAGGUcccgGAGGUCCG-CGAGaCCCc -3'
miRNA:   3'- uuUCUCCGa---CUCCAGGCaGUUC-GGGc -5'
28506 3' -56.8 NC_005946.1 + 50975 0.71 0.473841
Target:  5'- uGAGGAGGCUGAGGaugCUGagCAggAGCCUGu -3'
miRNA:   3'- -UUUCUCCGACUCCa--GGCa-GU--UCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 10743 0.72 0.408675
Target:  5'- -uGGGGGCgGAGGUCC-UCGcgggcaucuccAGCCCGg -3'
miRNA:   3'- uuUCUCCGaCUCCAGGcAGU-----------UCGGGC- -5'
28506 3' -56.8 NC_005946.1 + 38198 0.74 0.333626
Target:  5'- ---cGGGCUGAGGgaCGUCGGGCCCc -3'
miRNA:   3'- uuucUCCGACUCCagGCAGUUCGGGc -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.