miRNA display CGI


Results 1 - 20 of 22 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
5514 3' -53 NC_001798.1 + 59831 0.78 0.462644
Target:  5'- uGGGGCGCCgCGGUCGCCcgcGUCCGGc-- -3'
miRNA:   3'- -CCCUGUGGaGCUAGUGG---CAGGCUuuu -5'
5514 3' -53 NC_001798.1 + 97257 0.76 0.540848
Target:  5'- cGGGcggaGCACUUCGAUCGCgCGUUCGggGg -3'
miRNA:   3'- -CCC----UGUGGAGCUAGUG-GCAGGCuuUu -5'
5514 3' -53 NC_001798.1 + 79859 0.73 0.745531
Target:  5'- uGGGGCGCCUCGAUggaCGCgGcggCCGAGc- -3'
miRNA:   3'- -CCCUGUGGAGCUA---GUGgCa--GGCUUuu -5'
5514 3' -53 NC_001798.1 + 60719 0.71 0.848601
Target:  5'- aGGAUGCCUCGGUCGCCcacgaccaggagcgaGUCCaAAAGg -3'
miRNA:   3'- cCCUGUGGAGCUAGUGG---------------CAGGcUUUU- -5'
5514 3' -53 NC_001798.1 + 150003 0.69 0.897127
Target:  5'- cGGGGCgagcggcccgugGCCgCGGUCGCCcgaGUCCGAGu- -3'
miRNA:   3'- -CCCUG------------UGGaGCUAGUGG---CAGGCUUuu -5'
5514 3' -53 NC_001798.1 + 16773 0.69 0.903609
Target:  5'- gGGGACACC-CGAccCGCCGcguguccCCGGAAGa -3'
miRNA:   3'- -CCCUGUGGaGCUa-GUGGCa------GGCUUUU- -5'
5514 3' -53 NC_001798.1 + 125522 0.69 0.903609
Target:  5'- aGGGACGCgcagCGcAUCGCCG-CCGAGc- -3'
miRNA:   3'- -CCCUGUGga--GC-UAGUGGCaGGCUUuu -5'
5514 3' -53 NC_001798.1 + 46321 0.69 0.909851
Target:  5'- cGGGCGCCUCGugcacgcaGUCGCCGUgcUCGGu-- -3'
miRNA:   3'- cCCUGUGGAGC--------UAGUGGCA--GGCUuuu -5'
5514 3' -53 NC_001798.1 + 10257 0.69 0.915261
Target:  5'- uGGGACACCUCGGggauaaCACgagggugCGUCgGggGGg -3'
miRNA:   3'- -CCCUGUGGAGCUa-----GUG-------GCAGgCuuUU- -5'
5514 3' -53 NC_001798.1 + 70508 0.69 0.91585
Target:  5'- aGGACAcgguCCUggCGAUCACCGgcUCCGAc-- -3'
miRNA:   3'- cCCUGU----GGA--GCUAGUGGC--AGGCUuuu -5'
5514 3' -53 NC_001798.1 + 51140 0.68 0.942166
Target:  5'- cGGGAgGCCcgCGGUCACCccggGUcCCGAc-- -3'
miRNA:   3'- -CCCUgUGGa-GCUAGUGG----CA-GGCUuuu -5'
5514 3' -53 NC_001798.1 + 128625 0.68 0.937393
Target:  5'- cGGGCGCUUCGucuuUCACCaacCCGggGAc -3'
miRNA:   3'- cCCUGUGGAGCu---AGUGGca-GGCuuUU- -5'
5514 3' -53 NC_001798.1 + 23647 0.68 0.946696
Target:  5'- cGGGcCGCCUgGAgCGCCG-CCGGGc- -3'
miRNA:   3'- -CCCuGUGGAgCUaGUGGCaGGCUUuu -5'
5514 3' -53 NC_001798.1 + 9451 0.67 0.958858
Target:  5'- aGGGAC-CCgUCGcgcucccccUCGCUGUCCGAAc- -3'
miRNA:   3'- -CCCUGuGG-AGCu--------AGUGGCAGGCUUuu -5'
5514 3' -53 NC_001798.1 + 76907 0.67 0.962448
Target:  5'- uGGACcgACCUggcCGAU-GCCGUCCGggGc -3'
miRNA:   3'- cCCUG--UGGA---GCUAgUGGCAGGCuuUu -5'
5514 3' -53 NC_001798.1 + 60951 0.66 0.979503
Target:  5'- -aGGCGCgUCGuGUCACCGggcCCGGAGg -3'
miRNA:   3'- ccCUGUGgAGC-UAGUGGCa--GGCUUUu -5'
5514 3' -53 NC_001798.1 + 64693 0.66 0.968963
Target:  5'- gGGGGCAaagcCCUCGcuga-CGUCCGAGAu -3'
miRNA:   3'- -CCCUGU----GGAGCuagugGCAGGCUUUu -5'
5514 3' -53 NC_001798.1 + 152202 0.66 0.968963
Target:  5'- gGGGuCGCC-CucUCACCGUgCCGggGGu -3'
miRNA:   3'- -CCCuGUGGaGcuAGUGGCA-GGCuuUU- -5'
5514 3' -53 NC_001798.1 + 20048 0.66 0.971899
Target:  5'- uGGGACGCga-GggUAUCGUCCGAGu- -3'
miRNA:   3'- -CCCUGUGgagCuaGUGGCAGGCUUuu -5'
5514 3' -53 NC_001798.1 + 47782 0.66 0.974629
Target:  5'- cGGGAUACCgcgCGAccgcgucguUCGgCGUCCGu--- -3'
miRNA:   3'- -CCCUGUGGa--GCU---------AGUgGCAGGCuuuu -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.