miRNA display CGI


Results 1 - 20 of 55 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
28919 3' -62 NC_006146.1 + 98407 0.74 0.230943
Target:  5'- cCGCAGGCGCUGCaGC--CAGGCAcGGg -3'
miRNA:   3'- cGCGUCCGCGACG-CGcaGUCCGU-CCa -5'
28919 3' -62 NC_006146.1 + 168359 0.67 0.583634
Target:  5'- aGCGCGGGgucccgggGCgGgGgGUCGGGCGGGc -3'
miRNA:   3'- -CGCGUCCg-------CGaCgCgCAGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 170222 0.67 0.583634
Target:  5'- aGCGCGGGgucccgggGCgGgGgGUCGGGCGGGc -3'
miRNA:   3'- -CGCGUCCg-------CGaCgCgCAGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 169561 0.66 0.666195
Target:  5'- aGCgGgGGGCuuccccggggcccgaGC-GCGCGUCGGGUGGGg -3'
miRNA:   3'- -CG-CgUCCG---------------CGaCGCGCAGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 68174 0.7 0.409505
Target:  5'- cGgGCAGGCGCa--GCGUCAGgacGCGGGc -3'
miRNA:   3'- -CgCGUCCGCGacgCGCAGUC---CGUCCa -5'
28919 3' -62 NC_006146.1 + 64274 0.7 0.417887
Target:  5'- cGCaGCAGGCGCUGCG-G-CAaucGCGGGUg -3'
miRNA:   3'- -CG-CGUCCGCGACGCgCaGUc--CGUCCA- -5'
28919 3' -62 NC_006146.1 + 151152 0.7 0.43496
Target:  5'- uCGCAGGUGCccaGCGUCA-GCAGGa -3'
miRNA:   3'- cGCGUCCGCGacgCGCAGUcCGUCCa -5'
28919 3' -62 NC_006146.1 + 112540 0.7 0.438423
Target:  5'- uUGCAGGCGCUG-GUGUagacgagguccaugcCAGGCuGGUc -3'
miRNA:   3'- cGCGUCCGCGACgCGCA---------------GUCCGuCCA- -5'
28919 3' -62 NC_006146.1 + 44747 0.68 0.525809
Target:  5'- cCGCGGGCgGCUGUGguugucggggccCGgCGGGCGGGg -3'
miRNA:   3'- cGCGUCCG-CGACGC------------GCaGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 167427 0.67 0.583634
Target:  5'- aGCGCGGGgucccgggGCgGgGgGUCGGGCGGGc -3'
miRNA:   3'- -CGCGUCCg-------CGaCgCgCAGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 124193 0.68 0.54488
Target:  5'- -gGgGGGCGCUGa--G-CAGGCAGGUg -3'
miRNA:   3'- cgCgUCCGCGACgcgCaGUCCGUCCA- -5'
28919 3' -62 NC_006146.1 + 155430 0.69 0.478423
Target:  5'- cGCGCAGGCacagcgucucgGUcagggucucgcucUGCuGCGcCAGGCAGGa -3'
miRNA:   3'- -CGCGUCCG-----------CG-------------ACG-CGCaGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 51478 0.74 0.259337
Target:  5'- uGgGCGGGgGCUGCgGCGUCGGGaguuGGGa -3'
miRNA:   3'- -CgCGUCCgCGACG-CGCAGUCCg---UCCa -5'
28919 3' -62 NC_006146.1 + 155250 0.68 0.54488
Target:  5'- cGUGCAGGUGCUcgGCGCucagcgucugaGUaaaCAGGUGGGUc -3'
miRNA:   3'- -CGCGUCCGCGA--CGCG-----------CA---GUCCGUCCA- -5'
28919 3' -62 NC_006146.1 + 65481 0.72 0.32456
Target:  5'- uGUGCGGGUGCUGagcuggccgGCGUgGGGCuGGUu -3'
miRNA:   3'- -CGCGUCCGCGACg--------CGCAgUCCGuCCA- -5'
28919 3' -62 NC_006146.1 + 147557 0.69 0.45243
Target:  5'- cGCGcCAGGCGCUGaG-GUCGGucuGCAGGg -3'
miRNA:   3'- -CGC-GUCCGCGACgCgCAGUC---CGUCCa -5'
28919 3' -62 NC_006146.1 + 129131 0.67 0.573882
Target:  5'- gGCGCccGGGCGCaGgGCcUCcGGCGGGa -3'
miRNA:   3'- -CGCG--UCCGCGaCgCGcAGuCCGUCCa -5'
28919 3' -62 NC_006146.1 + 169291 0.67 0.583634
Target:  5'- aGCGCGGGgucccgggGCgGgGgGUCGGGCGGGc -3'
miRNA:   3'- -CGCGUCCg-------CGaCgCgCAGUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 56779 0.7 0.391438
Target:  5'- cGCGCAGGC-CUccucggugaGCGCGgcggccgucuggCGGGCGGGg -3'
miRNA:   3'- -CGCGUCCGcGA---------CGCGCa-----------GUCCGUCCa -5'
28919 3' -62 NC_006146.1 + 66571 0.7 0.426373
Target:  5'- gGCGCAGGCG----GCG-CAGGCAGGc -3'
miRNA:   3'- -CGCGUCCGCgacgCGCaGUCCGUCCa -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.