miRNA display CGI


Results 1 - 20 of 30 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
15828 5' -60.2 NC_004065.1 + 143350 0.66 0.81697
Target:  5'- gGGCGAGGGaacaCUGGGGGg-GACGAGg -3'
miRNA:   3'- -UCGCUCUCgag-GGCCCUCgaCUGCUU- -5'
15828 5' -60.2 NC_004065.1 + 44267 0.66 0.81697
Target:  5'- gAGCGAgcGAGCgaacgaCCGGGcgGGCgGGCGAGa -3'
miRNA:   3'- -UCGCU--CUCGag----GGCCC--UCGaCUGCUU- -5'
15828 5' -60.2 NC_004065.1 + 139834 0.66 0.81697
Target:  5'- cGGCcuGGAG-UCCCGGGAgGCgGGCGAc -3'
miRNA:   3'- -UCGc-UCUCgAGGGCCCU-CGaCUGCUu -5'
15828 5' -60.2 NC_004065.1 + 68337 0.66 0.81614
Target:  5'- uGCGGGAGCUgcugcagcagcugCCCGuGGAGaacacGACGAc -3'
miRNA:   3'- uCGCUCUCGA-------------GGGC-CCUCga---CUGCUu -5'
15828 5' -60.2 NC_004065.1 + 136604 0.66 0.808605
Target:  5'- uGGCGuuGGCUCCUGGGuGCagaucaagGAUGGu -3'
miRNA:   3'- -UCGCucUCGAGGGCCCuCGa-------CUGCUu -5'
15828 5' -60.2 NC_004065.1 + 120087 0.66 0.808605
Target:  5'- aGGCGAcucauGAcCUCCCGGGAcGC-GACGGc -3'
miRNA:   3'- -UCGCU-----CUcGAGGGCCCU-CGaCUGCUu -5'
15828 5' -60.2 NC_004065.1 + 17358 0.66 0.79144
Target:  5'- cGCGAGAGaCUgUUGuuGGGGUUGACGAGc -3'
miRNA:   3'- uCGCUCUC-GAgGGC--CCUCGACUGCUU- -5'
15828 5' -60.2 NC_004065.1 + 139575 0.66 0.79144
Target:  5'- cGCGcAGAGCaCUCGGGAGgUGGCc-- -3'
miRNA:   3'- uCGC-UCUCGaGGGCCCUCgACUGcuu -5'
15828 5' -60.2 NC_004065.1 + 31675 0.66 0.79144
Target:  5'- uGGCGAaGGaC-CCCGGcGAGCUGAgGGGg -3'
miRNA:   3'- -UCGCUcUC-GaGGGCC-CUCGACUgCUU- -5'
15828 5' -60.2 NC_004065.1 + 163333 0.67 0.764723
Target:  5'- cGGUc-GAGCUCCUgucucuuggGGGGGCUGugGGGg -3'
miRNA:   3'- -UCGcuCUCGAGGG---------CCCUCGACugCUU- -5'
15828 5' -60.2 NC_004065.1 + 104358 0.67 0.746357
Target:  5'- cGGCGAGAGUUCgucaGGGAGCacaUGGCa-- -3'
miRNA:   3'- -UCGCUCUCGAGgg--CCCUCG---ACUGcuu -5'
15828 5' -60.2 NC_004065.1 + 224458 0.67 0.746357
Target:  5'- gGGcCGGGcAGCUCaaCCGGGAGCUGGu--- -3'
miRNA:   3'- -UC-GCUC-UCGAG--GGCCCUCGACUgcuu -5'
15828 5' -60.2 NC_004065.1 + 77854 0.67 0.737032
Target:  5'- cGGCGuGGGCUCCCcGGugcacauGCUGGCa-- -3'
miRNA:   3'- -UCGCuCUCGAGGGcCCu------CGACUGcuu -5'
15828 5' -60.2 NC_004065.1 + 102657 0.67 0.727623
Target:  5'- cGGCGAGAuCUCUCGGGugagauuguaggAGUUGACGc- -3'
miRNA:   3'- -UCGCUCUcGAGGGCCC------------UCGACUGCuu -5'
15828 5' -60.2 NC_004065.1 + 91758 0.67 0.718138
Target:  5'- cGGCGGGAGCga-CGGGGGCgaGGCuGGAg -3'
miRNA:   3'- -UCGCUCUCGaggGCCCUCGa-CUG-CUU- -5'
15828 5' -60.2 NC_004065.1 + 143064 0.67 0.718138
Target:  5'- gGGCGAGgGGCgcuUCGGGGGC-GACGAGc -3'
miRNA:   3'- -UCGCUC-UCGag-GGCCCUCGaCUGCUU- -5'
15828 5' -60.2 NC_004065.1 + 41304 0.68 0.68931
Target:  5'- -aCG-GAGCUCuuGGaGAGCcUGACGAAc -3'
miRNA:   3'- ucGCuCUCGAGggCC-CUCG-ACUGCUU- -5'
15828 5' -60.2 NC_004065.1 + 108723 0.68 0.68931
Target:  5'- uGCGGGGccGCUgCCCGGuGAGCauccUGGCGAu -3'
miRNA:   3'- uCGCUCU--CGA-GGGCC-CUCG----ACUGCUu -5'
15828 5' -60.2 NC_004065.1 + 185831 0.68 0.679603
Target:  5'- uAGUGAGAGuCUCucggguCCGGGGGCgUGAgGGAc -3'
miRNA:   3'- -UCGCUCUC-GAG------GGCCCUCG-ACUgCUU- -5'
15828 5' -60.2 NC_004065.1 + 49584 0.68 0.679603
Target:  5'- cGCGAcGAGaaagCCCGGGuccCUGACGAAc -3'
miRNA:   3'- uCGCU-CUCga--GGGCCCuc-GACUGCUU- -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.