miRNA display CGI


Results 1 - 14 of 14 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
28422 5' -60.5 NC_005946.1 + 14315 0.66 0.659216
Target:  5'- aCGGGCGGcagguacauccccgaGGGCUacgCCGACaUGGggGa -3'
miRNA:   3'- -GCCUGUC---------------CCCGGga-GGCUGcACCuuC- -5'
28422 5' -60.5 NC_005946.1 + 61315 0.66 0.655191
Target:  5'- gGGACAGGGacGCCUggUgUGugGUGGGc- -3'
miRNA:   3'- gCCUGUCCC--CGGG--AgGCugCACCUuc -5'
28422 5' -60.5 NC_005946.1 + 19809 0.66 0.655191
Target:  5'- aGGACAGGcucaGGCCCaCCGugGa-GAAGc -3'
miRNA:   3'- gCCUGUCC----CCGGGaGGCugCacCUUC- -5'
28422 5' -60.5 NC_005946.1 + 51760 0.66 0.645118
Target:  5'- aGGACcgucGGaGGCCCUCCaACGUGa--- -3'
miRNA:   3'- gCCUGu---CC-CCGGGAGGcUGCACcuuc -5'
28422 5' -60.5 NC_005946.1 + 2317 0.66 0.635034
Target:  5'- cCGGggagcucgugaGCAGGGuGUCCUCgGACGcGGAc- -3'
miRNA:   3'- -GCC-----------UGUCCC-CGGGAGgCUGCaCCUuc -5'
28422 5' -60.5 NC_005946.1 + 24935 0.67 0.6048
Target:  5'- gGGAgcgaucaugcuCAGGG---CUCCGGCGUGGAGGg -3'
miRNA:   3'- gCCU-----------GUCCCcggGAGGCUGCACCUUC- -5'
28422 5' -60.5 NC_005946.1 + 76346 0.68 0.525512
Target:  5'- uGGAUcucaGGGCCCggacggaGACGUGGGAGg -3'
miRNA:   3'- gCCUGuc--CCCGGGagg----CUGCACCUUC- -5'
28422 5' -60.5 NC_005946.1 + 61603 0.69 0.487309
Target:  5'- uGGACAGGgucgaccccaGGCCC-CaCGAgGUGGAGa -3'
miRNA:   3'- gCCUGUCC----------CCGGGaG-GCUgCACCUUc -5'
28422 5' -60.5 NC_005946.1 + 83719 0.69 0.475174
Target:  5'- gGGugGGGGGCgauccaggaguccaCCUCUGgACGcugGGAAGg -3'
miRNA:   3'- gCCugUCCCCG--------------GGAGGC-UGCa--CCUUC- -5'
28422 5' -60.5 NC_005946.1 + 88133 0.69 0.450468
Target:  5'- gGGugGuGGGGaccaagagaCCCUCUGcCGUGGAGGu -3'
miRNA:   3'- gCCugU-CCCC---------GGGAGGCuGCACCUUC- -5'
28422 5' -60.5 NC_005946.1 + 72055 0.69 0.441497
Target:  5'- uGGACAGGGGCCUcuuuUCCuGCGUuaccuacaGGAc- -3'
miRNA:   3'- gCCUGUCCCCGGG----AGGcUGCA--------CCUuc -5'
28422 5' -60.5 NC_005946.1 + 94708 0.7 0.432629
Target:  5'- gGGuuccACGGGGGCCCUCagaggaggauUGGCGUcgaGGAGGu -3'
miRNA:   3'- gCC----UGUCCCCGGGAG----------GCUGCA---CCUUC- -5'
28422 5' -60.5 NC_005946.1 + 49418 0.73 0.26041
Target:  5'- gGGAC-GGGGUCCUCguaGACG-GGAGGa -3'
miRNA:   3'- gCCUGuCCCCGGGAGg--CUGCaCCUUC- -5'
28422 5' -60.5 NC_005946.1 + 80357 1.07 0.001122
Target:  5'- uCGGACAGGGGCCCUCCGACGUGGAAGc -3'
miRNA:   3'- -GCCUGUCCCCGGGAGGCUGCACCUUC- -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.