miRNA display CGI


Results 1 - 20 of 35 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
18600 3' -55.2 NC_004682.1 + 16721 0.66 0.718734
Target:  5'- cAGACGAuCUGGGCUG-ACAac-GCGGUg -3'
miRNA:   3'- -UCUGCU-GGCCCGACcUGUagaUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 18419 0.66 0.712282
Target:  5'- cGGCGaACUGGcGCUGGAUgcgucgGagaacucgcugcucgUCUACGGCg -3'
miRNA:   3'- uCUGC-UGGCC-CGACCUG------U---------------AGAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 23816 0.66 0.707964
Target:  5'- cAGAUGACCaGcGGcCUGGGCAa-UGCGGUc -3'
miRNA:   3'- -UCUGCUGG-C-CC-GACCUGUagAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 3233 0.66 0.707964
Target:  5'- -cGCGGCacaGGGC--GACAUCgGCGGCg -3'
miRNA:   3'- ucUGCUGg--CCCGacCUGUAGaUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 28090 0.66 0.707964
Target:  5'- aAGACGcUCGGGCgUGGcuGC-UCgcgGCGGCg -3'
miRNA:   3'- -UCUGCuGGCCCG-ACC--UGuAGa--UGUCG- -5'
18600 3' -55.2 NC_004682.1 + 8503 0.66 0.707964
Target:  5'- uGGACGACCccgaagugcGGaGCUGG-C-UCUACcGCa -3'
miRNA:   3'- -UCUGCUGG---------CC-CGACCuGuAGAUGuCG- -5'
18600 3' -55.2 NC_004682.1 + 2545 0.66 0.686209
Target:  5'- aAGACGAgaGcGGCUGGGa--CUGCAGa -3'
miRNA:   3'- -UCUGCUggC-CCGACCUguaGAUGUCg -5'
18600 3' -55.2 NC_004682.1 + 27181 0.66 0.685115
Target:  5'- cGGCGacccacuucgcGCCGGucuccuGCUGGGCGaugugggauacuuUCUGCGGCc -3'
miRNA:   3'- uCUGC-----------UGGCC------CGACCUGU-------------AGAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 15455 0.66 0.685115
Target:  5'- cGAgGACUcccgcgaGGGCUGGGCggCUGCccuGGUg -3'
miRNA:   3'- uCUgCUGG-------CCCGACCUGuaGAUG---UCG- -5'
18600 3' -55.2 NC_004682.1 + 13566 0.66 0.675247
Target:  5'- aAGAuCGcACCGGGCUGGuugacCAcCcACGGCc -3'
miRNA:   3'- -UCU-GC-UGGCCCGACCu----GUaGaUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 23427 0.67 0.653211
Target:  5'- uAGGUGGCgGGGcCUGGAa--CUACGGCc -3'
miRNA:   3'- -UCUGCUGgCCC-GACCUguaGAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 7691 0.67 0.642158
Target:  5'- gGGACGACCGc-CUGGACcggagCgugGCGGCu -3'
miRNA:   3'- -UCUGCUGGCccGACCUGua---Ga--UGUCG- -5'
18600 3' -55.2 NC_004682.1 + 44173 0.67 0.631096
Target:  5'- gAGACGACgaCGGGaucgUGGGuCGagUGCAGCa -3'
miRNA:   3'- -UCUGCUG--GCCCg---ACCU-GUagAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 18657 0.67 0.620035
Target:  5'- aGGACGAgCUGGaGCUGGaACGUC---AGCg -3'
miRNA:   3'- -UCUGCU-GGCC-CGACC-UGUAGaugUCG- -5'
18600 3' -55.2 NC_004682.1 + 32908 0.67 0.620035
Target:  5'- gAGACGACCGagaacgacaGGUgccgGGACG-CUcCAGCu -3'
miRNA:   3'- -UCUGCUGGC---------CCGa---CCUGUaGAuGUCG- -5'
18600 3' -55.2 NC_004682.1 + 41560 0.67 0.620035
Target:  5'- cAGAUGACCGuGUUGuucGGCAggUACAGCg -3'
miRNA:   3'- -UCUGCUGGCcCGAC---CUGUagAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 41759 0.67 0.608985
Target:  5'- -aGCGACCGGgagaGCUGGgugaacGCGUCggaguCAGCg -3'
miRNA:   3'- ucUGCUGGCC----CGACC------UGUAGau---GUCG- -5'
18600 3' -55.2 NC_004682.1 + 31220 0.67 0.608985
Target:  5'- gAGACcGCCGGcaccaGCgGGAUcagcuUCUGCAGCa -3'
miRNA:   3'- -UCUGcUGGCC-----CGaCCUGu----AGAUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 4954 0.67 0.608985
Target:  5'- cGACGACacccccggugcuCGGGCggucUGGAUcgCcACAGCg -3'
miRNA:   3'- uCUGCUG------------GCCCG----ACCUGuaGaUGUCG- -5'
18600 3' -55.2 NC_004682.1 + 29811 0.67 0.608985
Target:  5'- cGAUGAUCGGGUUGu-CGUCUGCcaucAGUg -3'
miRNA:   3'- uCUGCUGGCCCGACcuGUAGAUG----UCG- -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.