miRNA display CGI


Results 1 - 20 of 37 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
18760 3' -57.9 NC_004683.1 + 4390 1.09 0.000489
Target:  5'- cGGCCUCGGCGAGCAACUUGCGCUGCUc -3'
miRNA:   3'- -CCGGAGCCGCUCGUUGAACGCGACGA- -5'
18760 3' -57.9 NC_004683.1 + 52864 0.78 0.090987
Target:  5'- cGGCCUCGGCGAGCA----GCGCcucuUGCa -3'
miRNA:   3'- -CCGGAGCCGCUCGUugaaCGCG----ACGa -5'
18760 3' -57.9 NC_004683.1 + 26330 0.77 0.11075
Target:  5'- uGCCUCGGCGAGCAGaUUGuCGC-GCUc -3'
miRNA:   3'- cCGGAGCCGCUCGUUgAAC-GCGaCGA- -5'
18760 3' -57.9 NC_004683.1 + 20094 0.75 0.162806
Target:  5'- uGGCCUCGGCGguaucgacGGCGGCUacaacGCGgUGCa -3'
miRNA:   3'- -CCGGAGCCGC--------UCGUUGAa----CGCgACGa -5'
18760 3' -57.9 NC_004683.1 + 1677 0.74 0.181312
Target:  5'- gGGCCUCGaCGAucGCAGCgcggccggcGCGCUGCUg -3'
miRNA:   3'- -CCGGAGCcGCU--CGUUGaa-------CGCGACGA- -5'
18760 3' -57.9 NC_004683.1 + 38577 0.74 0.184737
Target:  5'- aGGCgUCGGCGuaGGCAgcgagcauccgagcGCUUGCGCcGCg -3'
miRNA:   3'- -CCGgAGCCGC--UCGU--------------UGAACGCGaCGa -5'
18760 3' -57.9 NC_004683.1 + 39246 0.74 0.196392
Target:  5'- uGCCUCGGCcuuGGCGACgaGCGgUGCg -3'
miRNA:   3'- cCGGAGCCGc--UCGUUGaaCGCgACGa -5'
18760 3' -57.9 NC_004683.1 + 48260 0.72 0.254741
Target:  5'- cGCCgcCGGCGAGUGGC-UGCGCaGCg -3'
miRNA:   3'- cCGGa-GCCGCUCGUUGaACGCGaCGa -5'
18760 3' -57.9 NC_004683.1 + 26545 0.72 0.258661
Target:  5'- cGGgCUCGGCGGGCGGCcuggaucgcggugUGCaCUGCg -3'
miRNA:   3'- -CCgGAGCCGCUCGUUGa------------ACGcGACGa -5'
18760 3' -57.9 NC_004683.1 + 17990 0.72 0.2613
Target:  5'- uGGCCg-GGUGGGCcAC-UGCGCUGUg -3'
miRNA:   3'- -CCGGagCCGCUCGuUGaACGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 45676 0.71 0.288914
Target:  5'- cGGCacaUCGGCGcuGUGGCUgGUGCUGCa -3'
miRNA:   3'- -CCGg--AGCCGCu-CGUUGAaCGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 51053 0.71 0.296166
Target:  5'- cGCCUUGGCGGcggguGCGGCcggaGCGCUGUg -3'
miRNA:   3'- cCGGAGCCGCU-----CGUUGaa--CGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 37353 0.71 0.303559
Target:  5'- aGGCCcguugacccaUCGGCGuaucaAGCAcaggcuccaagGCUUcGCGCUGCUg -3'
miRNA:   3'- -CCGG----------AGCCGC-----UCGU-----------UGAA-CGCGACGA- -5'
18760 3' -57.9 NC_004683.1 + 24429 0.7 0.318768
Target:  5'- uGGCCUgCGGCGA-CGAgUcgGCGUUGCa -3'
miRNA:   3'- -CCGGA-GCCGCUcGUUgAa-CGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 12801 0.7 0.318768
Target:  5'- cGCCgcuggCGGauaccCGGGCGAUgcgGCGCUGCUg -3'
miRNA:   3'- cCGGa----GCC-----GCUCGUUGaa-CGCGACGA- -5'
18760 3' -57.9 NC_004683.1 + 56662 0.7 0.334542
Target:  5'- cGGCCcauggucgaGGCGGGCAAg--GCGCUGUg -3'
miRNA:   3'- -CCGGag-------CCGCUCGUUgaaCGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 36930 0.7 0.34264
Target:  5'- cGCCcCGGCGguaucccggaGGuCAGCUUGCGCUGa- -3'
miRNA:   3'- cCGGaGCCGC----------UC-GUUGAACGCGACga -5'
18760 3' -57.9 NC_004683.1 + 44633 0.7 0.350049
Target:  5'- cGGCCgaaUCGGCGAGgAACUUGaaccaaucggcguCGUUGUa -3'
miRNA:   3'- -CCGG---AGCCGCUCgUUGAAC-------------GCGACGa -5'
18760 3' -57.9 NC_004683.1 + 30092 0.69 0.357572
Target:  5'- cGGgCUCGGCGGGCAGCcgacgcagugaGCGUUGg- -3'
miRNA:   3'- -CCgGAGCCGCUCGUUGaa---------CGCGACga -5'
18760 3' -57.9 NC_004683.1 + 320 0.69 0.376432
Target:  5'- cGGuUCUCGGCcAGCAg---GCGCUGCg -3'
miRNA:   3'- -CC-GGAGCCGcUCGUugaaCGCGACGa -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.