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 + 20094 0.75 0.162806
Target:  5'- uGGCCUCGGCGguaucgacGGCGGCUacaacGCGgUGCa -3'
miRNA:   3'- -CCGGAGCCGC--------UCGUUGAa----CGCgACGa -5'
18760 3' -57.9 NC_004683.1 + 18269 0.66 0.574331
Target:  5'- uGCC-CGGCGuGCAgacacagcGCgucGUGCUGCa -3'
miRNA:   3'- cCGGaGCCGCuCGU--------UGaa-CGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 32956 0.66 0.54651
Target:  5'- uGGCCUCGauccggucgacgaguGCG-GCAACgUUGCGCaccguguggcccUGCUu -3'
miRNA:   3'- -CCGGAGC---------------CGCuCGUUG-AACGCG------------ACGA- -5'
18760 3' -57.9 NC_004683.1 + 37447 0.66 0.542267
Target:  5'- cGCCacuUCGGCGAGgAgcuguucaaGCUUGCGCU-Cg -3'
miRNA:   3'- cCGG---AGCCGCUCgU---------UGAACGCGAcGa -5'
18760 3' -57.9 NC_004683.1 + 15403 0.67 0.500501
Target:  5'- gGGCCUCGG---GCAACaaugUGCcgccGCUGCUg -3'
miRNA:   3'- -CCGGAGCCgcuCGUUGa---ACG----CGACGA- -5'
18760 3' -57.9 NC_004683.1 + 52235 0.67 0.480153
Target:  5'- cGCCUCGGCGAcCcgGGCcgGCGCgGCa -3'
miRNA:   3'- cCGGAGCCGCUcG--UUGaaCGCGaCGa -5'
18760 3' -57.9 NC_004683.1 + 6014 0.68 0.421718
Target:  5'- -aCCUCGGCGAGCGcggacaACUUcGUcCUGCUc -3'
miRNA:   3'- ccGGAGCCGCUCGU------UGAA-CGcGACGA- -5'
18760 3' -57.9 NC_004683.1 + 13718 0.68 0.421718
Target:  5'- cGGUUUCgccGGUGcGCGGCcUGCGCUGCc -3'
miRNA:   3'- -CCGGAG---CCGCuCGUUGaACGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 46920 0.68 0.418909
Target:  5'- aGGCgCUgccgacgugcacgaCGGUgGAGCGGCacGCGCUGCUg -3'
miRNA:   3'- -CCG-GA--------------GCCG-CUCGUUGaaCGCGACGA- -5'
18760 3' -57.9 NC_004683.1 + 6944 0.69 0.403209
Target:  5'- cGGCCgacuggCGGCGGGCGGug-GUGCaGCUc -3'
miRNA:   3'- -CCGGa-----GCCGCUCGUUgaaCGCGaCGA- -5'
18760 3' -57.9 NC_004683.1 + 320 0.69 0.376432
Target:  5'- cGGuUCUCGGCcAGCAg---GCGCUGCg -3'
miRNA:   3'- -CC-GGAGCCGcUCGUugaaCGCGACGa -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 + 48260 0.72 0.254741
Target:  5'- cGCCgcCGGCGAGUGGC-UGCGCaGCg -3'
miRNA:   3'- cCGGa-GCCGCUCGUUGaACGCGaCGa -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 + 37353 0.71 0.303559
Target:  5'- aGGCCcguugacccaUCGGCGuaucaAGCAcaggcuccaagGCUUcGCGCUGCUg -3'
miRNA:   3'- -CCGG----------AGCCGC-----UCGU-----------UGAA-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 + 48231 0.66 0.574331
Target:  5'- uGCCgcUUGGUGAGCAcCUggaaugUGUGCUGUg -3'
miRNA:   3'- cCGG--AGCCGCUCGUuGA------ACGCGACGa -5'
18760 3' -57.9 NC_004683.1 + 52864 0.78 0.090987
Target:  5'- cGGCCUCGGCGAGCA----GCGCcucuUGCa -3'
miRNA:   3'- -CCGGAGCCGCUCGUugaaCGCG----ACGa -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.