miRNA display CGI


Results 1 - 20 of 43 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
13959 5' -55.8 NC_003521.1 + 153838 0.66 0.965346
Target:  5'- cAGGUGGugGAGcGGcugugcgccgugcgcGUggccaaCGGGCCCGAg -3'
miRNA:   3'- cUCCACCugCUC-CU---------------CAa-----GUUCGGGCU- -5'
13959 5' -55.8 NC_003521.1 + 100598 0.66 0.96407
Target:  5'- -cGGUGGACGAGGcGgcgaagcgUCucuuGGCCgGGg -3'
miRNA:   3'- cuCCACCUGCUCCuCa-------AGu---UCGGgCU- -5'
13959 5' -55.8 NC_003521.1 + 71971 0.66 0.96407
Target:  5'- ----aGGAcauCGAGGAGaUCAAGCCCu- -3'
miRNA:   3'- cuccaCCU---GCUCCUCaAGUUCGGGcu -5'
13959 5' -55.8 NC_003521.1 + 221150 0.66 0.960735
Target:  5'- gGAGGUGGGCGAGaucgugguGAGgu--GGCCgGGc -3'
miRNA:   3'- -CUCCACCUGCUC--------CUCaaguUCGGgCU- -5'
13959 5' -55.8 NC_003521.1 + 145630 0.66 0.960735
Target:  5'- -cGGUgccGGGCGuGGAGUUCc-GCgCCGAg -3'
miRNA:   3'- cuCCA---CCUGCuCCUCAAGuuCG-GGCU- -5'
13959 5' -55.8 NC_003521.1 + 166182 0.66 0.960735
Target:  5'- -cGGUGGcgGCGGuGGAGUc--GGCCCGGc -3'
miRNA:   3'- cuCCACC--UGCU-CCUCAaguUCGGGCU- -5'
13959 5' -55.8 NC_003521.1 + 143557 0.66 0.958634
Target:  5'- cGGGGUGGuCGAGGcgcucgaacaugcgcGGgucgcaggUCAGGCCgCGGa -3'
miRNA:   3'- -CUCCACCuGCUCC---------------UCa-------AGUUCGG-GCU- -5'
13959 5' -55.8 NC_003521.1 + 118704 0.66 0.957192
Target:  5'- gGAGGgcaggcucaUGGGCGAGGGGcgC-GGCaCCGGc -3'
miRNA:   3'- -CUCC---------ACCUGCUCCUCaaGuUCG-GGCU- -5'
13959 5' -55.8 NC_003521.1 + 10759 0.66 0.957192
Target:  5'- -cGGUGGACGuacggguGGAGUgUAAGCaCCa- -3'
miRNA:   3'- cuCCACCUGCu------CCUCAaGUUCG-GGcu -5'
13959 5' -55.8 NC_003521.1 + 104510 0.66 0.957192
Target:  5'- -uGGUGGuCGGcGAGUUCGucauGUCCGAc -3'
miRNA:   3'- cuCCACCuGCUcCUCAAGUu---CGGGCU- -5'
13959 5' -55.8 NC_003521.1 + 214561 0.66 0.952269
Target:  5'- cGGGGUgcagugagcagcagGGGCGAGGGGUccUCcuGGCaCCGGu -3'
miRNA:   3'- -CUCCA--------------CCUGCUCCUCA--AGu-UCG-GGCU- -5'
13959 5' -55.8 NC_003521.1 + 209636 0.67 0.949466
Target:  5'- cGGGGaGGACGAcuaugaGGGGUUC-AGCUCGc -3'
miRNA:   3'- -CUCCaCCUGCU------CCUCAAGuUCGGGCu -5'
13959 5' -55.8 NC_003521.1 + 114305 0.67 0.945276
Target:  5'- cAGGcUGGuCGAGGAGga-GAGCgCGAc -3'
miRNA:   3'- cUCC-ACCuGCUCCUCaagUUCGgGCU- -5'
13959 5' -55.8 NC_003521.1 + 77027 0.67 0.945276
Target:  5'- -uGGUGGugGAGGAGgggagaaCGGGgUCGGu -3'
miRNA:   3'- cuCCACCugCUCCUCaa-----GUUCgGGCU- -5'
13959 5' -55.8 NC_003521.1 + 165333 0.67 0.940865
Target:  5'- uGGGGagGGGCG-GGAua-CGGGCCCGAg -3'
miRNA:   3'- -CUCCa-CCUGCuCCUcaaGUUCGGGCU- -5'
13959 5' -55.8 NC_003521.1 + 91996 0.67 0.940865
Target:  5'- aGGGUGGAUGGGGgagGGUagGGGUCgGAa -3'
miRNA:   3'- cUCCACCUGCUCC---UCAagUUCGGgCU- -5'
13959 5' -55.8 NC_003521.1 + 120300 0.67 0.940865
Target:  5'- -cGGUGGGCGAGcGcgaccAGcUCAAGgCCGAc -3'
miRNA:   3'- cuCCACCUGCUC-C-----UCaAGUUCgGGCU- -5'
13959 5' -55.8 NC_003521.1 + 229317 0.67 0.93623
Target:  5'- uGGGGacGGcucaucugcuGCGAGGAGUcccUCGAGCCCc- -3'
miRNA:   3'- -CUCCa-CC----------UGCUCCUCA---AGUUCGGGcu -5'
13959 5' -55.8 NC_003521.1 + 142516 0.67 0.93137
Target:  5'- cGAGucGGcCGAGGAGgagCGGGCCCGc -3'
miRNA:   3'- -CUCcaCCuGCUCCUCaa-GUUCGGGCu -5'
13959 5' -55.8 NC_003521.1 + 224187 0.67 0.923656
Target:  5'- gGAGGUggaGGACGAGGAGgcggacgaugaagaCGaggaagagccuauggAGCCCGAc -3'
miRNA:   3'- -CUCCA---CCUGCUCCUCaa------------GU---------------UCGGGCU- -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.