miRNA display CGI


Results 1 - 17 of 17 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
20441 5' -53.2 NC_004688.1 + 79957 0.66 0.947331
Target:  5'- gCGgUGGAGGGCCA--UGGgcuugucgGACGGGCc -3'
miRNA:   3'- -GCgGCUUUCCGGUcaACCa-------CUGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 7025 0.66 0.947331
Target:  5'- uGuuGAucGGGCCAGUcgUGGauaGCGGGCg -3'
miRNA:   3'- gCggCUu-UCCGGUCA--ACCac-UGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 101564 0.66 0.942712
Target:  5'- gGCCGAucuGGGCaagguGUUcgaGGUcGACGGGCa -3'
miRNA:   3'- gCGGCUu--UCCGgu---CAA---CCA-CUGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 97017 0.66 0.937837
Target:  5'- uGgaGAAAGGCUuggUGGUGGCGAu- -3'
miRNA:   3'- gCggCUUUCCGGucaACCACUGCUug -5'
20441 5' -53.2 NC_004688.1 + 54331 0.66 0.937336
Target:  5'- cCGUCGAAGGcccagcgguacucGCC-GUUGGUGAUGuGCc -3'
miRNA:   3'- -GCGGCUUUC-------------CGGuCAACCACUGCuUG- -5'
20441 5' -53.2 NC_004688.1 + 8796 0.66 0.927313
Target:  5'- uCGaCCGAAAGGuCCAa--GGUGcCGGACu -3'
miRNA:   3'- -GC-GGCUUUCC-GGUcaaCCACuGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 43081 0.67 0.903162
Target:  5'- gGCCGu-GGGCCAGagaa-GGCGAGCa -3'
miRNA:   3'- gCGGCuuUCCGGUCaaccaCUGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 35624 0.67 0.903162
Target:  5'- aGCCc--GGGCCGG-UGGccuucaucUGGCGAGCa -3'
miRNA:   3'- gCGGcuuUCCGGUCaACC--------ACUGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 31600 0.68 0.882386
Target:  5'- gCGCCGAAGauGGCgCGGUguaacccgcUGGUGcCGAAg -3'
miRNA:   3'- -GCGGCUUU--CCG-GUCA---------ACCACuGCUUg -5'
20441 5' -53.2 NC_004688.1 + 42337 0.68 0.882386
Target:  5'- uGCCGGccacgAGGGCgCGGUcGGUGAacugcaGGACg -3'
miRNA:   3'- gCGGCU-----UUCCG-GUCAaCCACUg-----CUUG- -5'
20441 5' -53.2 NC_004688.1 + 55382 0.69 0.843028
Target:  5'- uCGCCGccGGGCuCGGcUGGccGACGAAUa -3'
miRNA:   3'- -GCGGCuuUCCG-GUCaACCa-CUGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 79835 0.69 0.834504
Target:  5'- gGCCGAGuGGGCCcaa-GGUG-CGAGCa -3'
miRNA:   3'- gCGGCUU-UCCGGucaaCCACuGCUUG- -5'
20441 5' -53.2 NC_004688.1 + 28381 0.7 0.792859
Target:  5'- uCGCCGAAguuggugaccgccagGuGGCCGGacugGGUGACGGugGCg -3'
miRNA:   3'- -GCGGCUU---------------U-CCGGUCaa--CCACUGCU--UG- -5'
20441 5' -53.2 NC_004688.1 + 101196 0.7 0.759891
Target:  5'- aGCCGGaacuguccGAGGCCgAGUUgaaGGUGGCGGc- -3'
miRNA:   3'- gCGGCU--------UUCCGG-UCAA---CCACUGCUug -5'
20441 5' -53.2 NC_004688.1 + 44691 0.71 0.739809
Target:  5'- -cCCGguAGGCCAgGUUGGUGGCcaccagGGACa -3'
miRNA:   3'- gcGGCuuUCCGGU-CAACCACUG------CUUG- -5'
20441 5' -53.2 NC_004688.1 + 50210 0.71 0.698507
Target:  5'- cCGCCGAcuGGCCGGUgcccgagcgcUGGUG--GAACa -3'
miRNA:   3'- -GCGGCUuuCCGGUCA----------ACCACugCUUG- -5'
20441 5' -53.2 NC_004688.1 + 25479 1.11 0.002728
Target:  5'- cCGCCGAAAGGCCAGUUGGUGACGAACa -3'
miRNA:   3'- -GCGGCUUUCCGGUCAACCACUGCUUG- -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.