miRNA display CGI


Results 1 - 20 of 48 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
25549 3' -60.4 NC_005337.1 + 42552 0.66 0.695409
Target:  5'- -gCGGGcgCUgGUGCGGcUGCgGCUGGAg -3'
miRNA:   3'- aaGCUCa-GGgCGCGCU-ACGgCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 127551 0.66 0.695409
Target:  5'- cUCGAcGUCCgCGUugucCGGcUGCUGCUGGAg -3'
miRNA:   3'- aAGCU-CAGG-GCGc---GCU-ACGGCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 101173 0.66 0.695409
Target:  5'- -gCGAucacGUUCCGCGUGAUcGCCGCgaucacGGGc -3'
miRNA:   3'- aaGCU----CAGGGCGCGCUA-CGGCGa-----CCU- -5'
25549 3' -60.4 NC_005337.1 + 121994 0.66 0.68645
Target:  5'- -gCGAGcUCCUGCGCGcggggugcgacccgGCCGCgacGGAc -3'
miRNA:   3'- aaGCUC-AGGGCGCGCua------------CGGCGa--CCU- -5'
25549 3' -60.4 NC_005337.1 + 23157 0.66 0.685452
Target:  5'- -cCGGGagaaccugaCCCGCGUGGaggcGCUGCUGGAc -3'
miRNA:   3'- aaGCUCa--------GGGCGCGCUa---CGGCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 118850 0.66 0.685452
Target:  5'- aUCucGUCCCGUucgGCGG-GCUGCUGGc -3'
miRNA:   3'- aAGcuCAGGGCG---CGCUaCGGCGACCu -5'
25549 3' -60.4 NC_005337.1 + 123714 0.66 0.685452
Target:  5'- -cUGGGcacgCCCGUGCGGaagcagacGCUGCUGGAc -3'
miRNA:   3'- aaGCUCa---GGGCGCGCUa-------CGGCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 11081 0.66 0.685452
Target:  5'- aUCG-GUCgCCGcCGCGAccGCaGCUGGAg -3'
miRNA:   3'- aAGCuCAG-GGC-GCGCUa-CGgCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 26843 0.66 0.685452
Target:  5'- -aCGAGUCCaGCuucuCGGUGC-GCUGGAu -3'
miRNA:   3'- aaGCUCAGGgCGc---GCUACGgCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 128785 0.66 0.684453
Target:  5'- aUUCGGGUCCaCGgGCGugcgcaccgagcgGUGCCGCa--- -3'
miRNA:   3'- -AAGCUCAGG-GCgCGC-------------UACGGCGaccu -5'
25549 3' -60.4 NC_005337.1 + 105678 0.66 0.675451
Target:  5'- cUCGugcGUCCaGaCGCGGUGgCGCUGGu -3'
miRNA:   3'- aAGCu--CAGGgC-GCGCUACgGCGACCu -5'
25549 3' -60.4 NC_005337.1 + 29989 0.66 0.675451
Target:  5'- cUCGcGgaccgCCCGCGCGAacuccuUGCUGC-GGAc -3'
miRNA:   3'- aAGCuCa----GGGCGCGCU------ACGGCGaCCU- -5'
25549 3' -60.4 NC_005337.1 + 64400 0.66 0.675451
Target:  5'- cUUCuGGUCCaaCGUGcgGUCGCUGGAc -3'
miRNA:   3'- -AAGcUCAGGgcGCGCuaCGGCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 3389 0.66 0.665417
Target:  5'- -aUGAGgugcagCgGCGUGuUGCCGCUGGAg -3'
miRNA:   3'- aaGCUCag----GgCGCGCuACGGCGACCU- -5'
25549 3' -60.4 NC_005337.1 + 1237 0.66 0.662401
Target:  5'- aUCGGG-CCCGUacacgacgagccggGCGAUcaGCCGCaGGAu -3'
miRNA:   3'- aAGCUCaGGGCG--------------CGCUA--CGGCGaCCU- -5'
25549 3' -60.4 NC_005337.1 + 6235 0.66 0.655356
Target:  5'- -gCGuGUcCCCGCGCGAgucagcGUCGCUGa- -3'
miRNA:   3'- aaGCuCA-GGGCGCGCUa-----CGGCGACcu -5'
25549 3' -60.4 NC_005337.1 + 39471 0.66 0.654348
Target:  5'- -aCGAcgccuccGUgCCGCGCGAcgcgcgcgcgcUGCUGCUGGu -3'
miRNA:   3'- aaGCU-------CAgGGCGCGCU-----------ACGGCGACCu -5'
25549 3' -60.4 NC_005337.1 + 101239 0.66 0.645276
Target:  5'- -cUGGG-CCaucgaGCGCGAugaccUGCCGCUGGc -3'
miRNA:   3'- aaGCUCaGGg----CGCGCU-----ACGGCGACCu -5'
25549 3' -60.4 NC_005337.1 + 12634 0.66 0.645276
Target:  5'- --gGGGUCgCCGCGUcgucGAUGCCG-UGGGu -3'
miRNA:   3'- aagCUCAG-GGCGCG----CUACGGCgACCU- -5'
25549 3' -60.4 NC_005337.1 + 30402 0.66 0.645276
Target:  5'- gUCGAGgccgCCgCGCuccGCGAacUGCCGCUugaGGAu -3'
miRNA:   3'- aAGCUCa---GG-GCG---CGCU--ACGGCGA---CCU- -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.