miRNA display CGI


Results 1 - 20 of 20 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
12366 3' -58.7 NC_003324.1 + 13975 0.66 0.559349
Target:  5'- cGGGCCGGacaACGcuAUAA-CGGGCCGUc -3'
miRNA:   3'- uCCUGGCCg--UGCc-UGUUaGUCCGGCA- -5'
12366 3' -58.7 NC_003324.1 + 22690 0.66 0.548828
Target:  5'- cGGGGCuCGGCaACGcGGCAGgcagccaaaAGGCCGc -3'
miRNA:   3'- -UCCUG-GCCG-UGC-CUGUUag-------UCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 42767 0.67 0.497286
Target:  5'- cGGAUCGGCaACGGAgAAcgugCcuuGGCCGg -3'
miRNA:   3'- uCCUGGCCG-UGCCUgUUa---Gu--CCGGCa -5'
12366 3' -58.7 NC_003324.1 + 22818 0.67 0.487231
Target:  5'- aAGGcugcucgacGCCGGCAaaaaGGACGAU-GGGCUGa -3'
miRNA:   3'- -UCC---------UGGCCGUg---CCUGUUAgUCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 35785 0.67 0.477275
Target:  5'- aAGGucACgGGCAUGagcGACccgGAUCAGGCCGa -3'
miRNA:   3'- -UCC--UGgCCGUGC---CUG---UUAGUCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 38551 0.67 0.467419
Target:  5'- -uGACCGGCAgcucCGGGCGAUaGGGCaCGc -3'
miRNA:   3'- ucCUGGCCGU----GCCUGUUAgUCCG-GCa -5'
12366 3' -58.7 NC_003324.1 + 603 0.67 0.467419
Target:  5'- uGGACCGagGCGGACAucaAGGCCu- -3'
miRNA:   3'- uCCUGGCcgUGCCUGUuagUCCGGca -5'
12366 3' -58.7 NC_003324.1 + 9678 0.67 0.466439
Target:  5'- uGGGGCCGG-GCGGAUAcgCccaggucuacacgGGGUCGUg -3'
miRNA:   3'- -UCCUGGCCgUGCCUGUuaG-------------UCCGGCA- -5'
12366 3' -58.7 NC_003324.1 + 18286 0.67 0.456701
Target:  5'- -cGGCCGacGCGCGGGCAAUCGcugccccGGCCu- -3'
miRNA:   3'- ucCUGGC--CGUGCCUGUUAGU-------CCGGca -5'
12366 3' -58.7 NC_003324.1 + 28409 0.67 0.44803
Target:  5'- cGGGCuCGGCAUGGAUGgggauGUCucGGCUGUc -3'
miRNA:   3'- uCCUG-GCCGUGCCUGU-----UAGu-CCGGCA- -5'
12366 3' -58.7 NC_003324.1 + 24586 0.68 0.429095
Target:  5'- gGGcGACCaGCGCaGGAUcAUCGGGgCCGUa -3'
miRNA:   3'- -UC-CUGGcCGUG-CCUGuUAGUCC-GGCA- -5'
12366 3' -58.7 NC_003324.1 + 24385 0.68 0.429095
Target:  5'- cGGGCUGGC-CGaGAUggUCGGGCa-- -3'
miRNA:   3'- uCCUGGCCGuGC-CUGuuAGUCCGgca -5'
12366 3' -58.7 NC_003324.1 + 4866 0.68 0.392686
Target:  5'- -cGGCCGGUcgagcccuguucAUGGGCcGUCAGGCUGg -3'
miRNA:   3'- ucCUGGCCG------------UGCCUGuUAGUCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 11829 0.69 0.358345
Target:  5'- cGGGCCgGGCACGG-CAuugaccacGUUGGGCCa- -3'
miRNA:   3'- uCCUGG-CCGUGCCuGU--------UAGUCCGGca -5'
12366 3' -58.7 NC_003324.1 + 14519 0.7 0.34198
Target:  5'- uGGacGCCGGCAUGGGCc--CAGaGCCGg -3'
miRNA:   3'- uCC--UGGCCGUGCCUGuuaGUC-CGGCa -5'
12366 3' -58.7 NC_003324.1 + 45688 0.71 0.282003
Target:  5'- aGGGGCuCGGCGaggcgugagcaGGGCAAUCAGGCg-- -3'
miRNA:   3'- -UCCUG-GCCGUg----------CCUGUUAGUCCGgca -5'
12366 3' -58.7 NC_003324.1 + 12522 0.71 0.279925
Target:  5'- cGGGCUGGUggcaguucgaggcgACGGuuCGAUCAGGCUGg -3'
miRNA:   3'- uCCUGGCCG--------------UGCCu-GUUAGUCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 35146 0.74 0.186963
Target:  5'- cGGGcgacaaugcagaaACCGGCAgCGacGACGAUCAGGCCGc -3'
miRNA:   3'- -UCC-------------UGGCCGU-GC--CUGUUAGUCCGGCa -5'
12366 3' -58.7 NC_003324.1 + 11216 0.75 0.155652
Target:  5'- -aGACCGGCgaaGCGGACcaaGGUCGGGCCa- -3'
miRNA:   3'- ucCUGGCCG---UGCCUG---UUAGUCCGGca -5'
12366 3' -58.7 NC_003324.1 + 31158 1.06 0.00076
Target:  5'- aAGGACCGGCACGGACAAUCAGGCCGUc -3'
miRNA:   3'- -UCCUGGCCGUGCCUGUUAGUCCGGCA- -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.