miRNA display CGI


Results 1 - 16 of 16 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
18994 5' -53.4 NC_004684.1 + 66384 0.66 0.875519
Target:  5'- gGGUGAagUCCGGcaugguguccuccucGGGCUGG-CGGGu -3'
miRNA:   3'- aCCACUaaAGGCCc--------------UCCGACUaGUCC- -5'
18994 5' -53.4 NC_004684.1 + 53765 0.66 0.870043
Target:  5'- gUGGUGAUgguggUCGGGucccagaccggcgcGGCgcuggGAUCGGGu -3'
miRNA:   3'- -ACCACUAaa---GGCCCu-------------CCGa----CUAGUCC- -5'
18994 5' -53.4 NC_004684.1 + 5487 0.66 0.86686
Target:  5'- cGGaacGAUUgcgCUGGuaGAGGaCUGGUCGGGa -3'
miRNA:   3'- aCCa--CUAAa--GGCC--CUCC-GACUAGUCC- -5'
18994 5' -53.4 NC_004684.1 + 64554 0.66 0.86686
Target:  5'- uUGGUGA---CCGGGuuGgUGcgCAGGa -3'
miRNA:   3'- -ACCACUaaaGGCCCucCgACuaGUCC- -5'
18994 5' -53.4 NC_004684.1 + 9456 0.66 0.850372
Target:  5'- cUGGUG--UUCCGGGcgcuGGaGCUGG-CGGGc -3'
miRNA:   3'- -ACCACuaAAGGCCC----UC-CGACUaGUCC- -5'
18994 5' -53.4 NC_004684.1 + 62800 0.67 0.832975
Target:  5'- cGG-GGUUgCCGGGcAGGCggggGAgcuuUCAGGc -3'
miRNA:   3'- aCCaCUAAaGGCCC-UCCGa---CU----AGUCC- -5'
18994 5' -53.4 NC_004684.1 + 14760 0.67 0.832975
Target:  5'- cGGUGcgUcgaacugaaCCGGGAGcGCacugcuuucggUGGUCAGGg -3'
miRNA:   3'- aCCACuaAa--------GGCCCUC-CG-----------ACUAGUCC- -5'
18994 5' -53.4 NC_004684.1 + 18861 0.68 0.776064
Target:  5'- cGGUGA---CCGGGuGGCcGcacUCAGGg -3'
miRNA:   3'- aCCACUaaaGGCCCuCCGaCu--AGUCC- -5'
18994 5' -53.4 NC_004684.1 + 66342 0.68 0.776064
Target:  5'- cGGUGAcg-CCGGGgcGGGC-GGcCAGGg -3'
miRNA:   3'- aCCACUaaaGGCCC--UCCGaCUaGUCC- -5'
18994 5' -53.4 NC_004684.1 + 45491 0.71 0.60488
Target:  5'- aGGUGGUgcgccagggUCCGGuGGaGCUGGUCAGc -3'
miRNA:   3'- aCCACUAa--------AGGCCcUC-CGACUAGUCc -5'
18994 5' -53.4 NC_004684.1 + 50568 0.71 0.572198
Target:  5'- uUGGUGGag-CgGGGAGGUUGAgccuaugccgUCGGGu -3'
miRNA:   3'- -ACCACUaaaGgCCCUCCGACU----------AGUCC- -5'
18994 5' -53.4 NC_004684.1 + 20938 0.72 0.516701
Target:  5'- cGGUGAcaaacgcguugUCCGGGAaGCUGGcCAGGa -3'
miRNA:   3'- aCCACUaa---------AGGCCCUcCGACUaGUCC- -5'
18994 5' -53.4 NC_004684.1 + 40581 0.75 0.391273
Target:  5'- cGGUGAUcUCCGGGucGGUggUGGUCAGc -3'
miRNA:   3'- aCCACUAaAGGCCCu-CCG--ACUAGUCc -5'
18994 5' -53.4 NC_004684.1 + 30158 0.79 0.233065
Target:  5'- cGGUGAguggCCGGGAGGCcGGUacCAGGc -3'
miRNA:   3'- aCCACUaaa-GGCCCUCCGaCUA--GUCC- -5'
18994 5' -53.4 NC_004684.1 + 60750 0.8 0.198986
Target:  5'- gGGUGGccgCCGGGuggGGGUUGGUCAGGa -3'
miRNA:   3'- aCCACUaaaGGCCC---UCCGACUAGUCC- -5'
18994 5' -53.4 NC_004684.1 + 13444 1.11 0.001569
Target:  5'- aUGGUGAUUUCCGGGAGGCUGAUCAGGu -3'
miRNA:   3'- -ACCACUAAAGGCCCUCCGACUAGUCC- -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.