miRNA display CGI


Results 1 - 20 of 28 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
19348 3' -62.8 NC_004685.1 + 36386 0.66 0.379711
Target:  5'- cGACGGCGGcCUGGgcaacuuccccGCCCugGUGCgCgGCGAu -3'
miRNA:   3'- -CUGCCGUC-GACC-----------UGGG--CACG-GgCGUU- -5'
19348 3' -62.8 NC_004685.1 + 34375 0.66 0.371325
Target:  5'- aGCcuGCGGCUGGACCCGUcaaGCCguacaGCGu -3'
miRNA:   3'- cUGc-CGUCGACCUGGGCA---CGGg----CGUu -5'
19348 3' -62.8 NC_004685.1 + 3698 0.66 0.371325
Target:  5'- gGugGcGCAGCguuuGACCCGggUGCCCGaCAc -3'
miRNA:   3'- -CugC-CGUCGac--CUGGGC--ACGGGC-GUu -5'
19348 3' -62.8 NC_004685.1 + 9439 0.66 0.370493
Target:  5'- cGCGcGUugucGCUGGugCCGccgaguaucacgcUGCCCGCGAu -3'
miRNA:   3'- cUGC-CGu---CGACCugGGC-------------ACGGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 49345 0.66 0.363066
Target:  5'- cGACGGCAGCaGuGugUCGUccucgguguacuGCUCGCAGu -3'
miRNA:   3'- -CUGCCGUCGaC-CugGGCA------------CGGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 31953 0.66 0.354935
Target:  5'- uGACGGCGguguGCUGccACCCG-GCCCGuCGAu -3'
miRNA:   3'- -CUGCCGU----CGACc-UGGGCaCGGGC-GUU- -5'
19348 3' -62.8 NC_004685.1 + 43681 0.66 0.354935
Target:  5'- aACGGauCGGCUGGggguacGCCCGacUGuCCCGCGAg -3'
miRNA:   3'- cUGCC--GUCGACC------UGGGC--AC-GGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 14040 0.66 0.346933
Target:  5'- aACGGCAGCcGcauCCUGUucggcGCCCGCGAg -3'
miRNA:   3'- cUGCCGUCGaCcu-GGGCA-----CGGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 58978 0.66 0.346933
Target:  5'- cAUGGCAGCcu--CCCGUGCgCGCGg -3'
miRNA:   3'- cUGCCGUCGaccuGGGCACGgGCGUu -5'
19348 3' -62.8 NC_004685.1 + 62277 0.66 0.339062
Target:  5'- cGCGGCGcGCUGG-CCUGcGCCCucGCAc -3'
miRNA:   3'- cUGCCGU-CGACCuGGGCaCGGG--CGUu -5'
19348 3' -62.8 NC_004685.1 + 24115 0.67 0.322957
Target:  5'- aACGGCucgaAGCUGGGCagcacagcgcccuCCGUagugGCCCGCGu -3'
miRNA:   3'- cUGCCG----UCGACCUG-------------GGCA----CGGGCGUu -5'
19348 3' -62.8 NC_004685.1 + 25807 0.67 0.308883
Target:  5'- aGCGGCGG-UGGGCCgGUcaGCgCCGCGGg -3'
miRNA:   3'- cUGCCGUCgACCUGGgCA--CG-GGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 15219 0.67 0.308883
Target:  5'- --gGGCGGCUGGACCgagaaGUaCCUGCGGu -3'
miRNA:   3'- cugCCGUCGACCUGGg----CAcGGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 11156 0.67 0.294579
Target:  5'- uACGGCGGgUGGAUUCGUaccaGgCCGCAGg -3'
miRNA:   3'- cUGCCGUCgACCUGGGCA----CgGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 23711 0.67 0.287623
Target:  5'- --aGGCAGCUGGuucACCa--GCCCGCGc -3'
miRNA:   3'- cugCCGUCGACC---UGGgcaCGGGCGUu -5'
19348 3' -62.8 NC_004685.1 + 18710 0.67 0.287623
Target:  5'- -gUGGCGGCUGGGCCaa--CCCGCu- -3'
miRNA:   3'- cuGCCGUCGACCUGGgcacGGGCGuu -5'
19348 3' -62.8 NC_004685.1 + 44426 0.68 0.2741
Target:  5'- cGGCGGCgaguauguagGGCUGGGCCUGggggacGCCaGCGAa -3'
miRNA:   3'- -CUGCCG----------UCGACCUGGGCa-----CGGgCGUU- -5'
19348 3' -62.8 NC_004685.1 + 51665 0.68 0.267531
Target:  5'- uGCGGCAGC---GCCUcgucgGUGCCCGCGGa -3'
miRNA:   3'- cUGCCGUCGaccUGGG-----CACGGGCGUU- -5'
19348 3' -62.8 NC_004685.1 + 45928 0.68 0.248589
Target:  5'- -cCGGCaAGCUGGACCU--GCCCGaCAc -3'
miRNA:   3'- cuGCCG-UCGACCUGGGcaCGGGC-GUu -5'
19348 3' -62.8 NC_004685.1 + 27195 0.69 0.223387
Target:  5'- cGGCGGCugccgugaagcugaAGCUGGugCCGcUGCCCa--- -3'
miRNA:   3'- -CUGCCG--------------UCGACCugGGC-ACGGGcguu -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.