miRNA display CGI


Results 1 - 20 of 41 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
31120 3' -56 NC_006560.1 + 51365 0.66 0.9309
Target:  5'- cGGGACGgagGCcggCCGCcGcgCGCUCGGc -3'
miRNA:   3'- -UCCUGCa--UGuagGGCGaCa-GCGAGCC- -5'
31120 3' -56 NC_006560.1 + 8730 0.66 0.925706
Target:  5'- -cGGCGgcCGUCUCGUcGUCGCUCu- -3'
miRNA:   3'- ucCUGCauGUAGGGCGaCAGCGAGcc -5'
31120 3' -56 NC_006560.1 + 73289 0.66 0.920279
Target:  5'- -cGACGUggcggcccACGUCCCGCUcauccagccgGUCauagaggaggGCUCGGg -3'
miRNA:   3'- ucCUGCA--------UGUAGGGCGA----------CAG----------CGAGCC- -5'
31120 3' -56 NC_006560.1 + 51244 0.66 0.920279
Target:  5'- uGGGCGcGCG-CCUGCacccgCGCUCGGc -3'
miRNA:   3'- uCCUGCaUGUaGGGCGaca--GCGAGCC- -5'
31120 3' -56 NC_006560.1 + 85885 0.66 0.914619
Target:  5'- cAGGGgGUGCGccagccacucuUCCgGCgGUCGCgCGGc -3'
miRNA:   3'- -UCCUgCAUGU-----------AGGgCGaCAGCGaGCC- -5'
31120 3' -56 NC_006560.1 + 117679 0.66 0.908728
Target:  5'- --cGCGUACAUgCCGCgGgacgCGCUgGGg -3'
miRNA:   3'- uccUGCAUGUAgGGCGaCa---GCGAgCC- -5'
31120 3' -56 NC_006560.1 + 19409 0.66 0.908728
Target:  5'- cGGGCGa--GUCgCCGCggcggCGCUCGGc -3'
miRNA:   3'- uCCUGCaugUAG-GGCGaca--GCGAGCC- -5'
31120 3' -56 NC_006560.1 + 93258 0.66 0.906306
Target:  5'- uGGA-GaGCAUCCgGCUGUCGCgucuucuguuugaCGGg -3'
miRNA:   3'- uCCUgCaUGUAGGgCGACAGCGa------------GCC- -5'
31120 3' -56 NC_006560.1 + 99250 0.67 0.889682
Target:  5'- gGGGGCGUugG--CCGgaGUCGCguaCGGc -3'
miRNA:   3'- -UCCUGCAugUagGGCgaCAGCGa--GCC- -5'
31120 3' -56 NC_006560.1 + 70934 0.67 0.889682
Target:  5'- gGGGAC-UACAgCCUGggGcCGCUCGGc -3'
miRNA:   3'- -UCCUGcAUGUaGGGCgaCaGCGAGCC- -5'
31120 3' -56 NC_006560.1 + 112537 0.67 0.875873
Target:  5'- cGGcACGUGCuggcgCCCGCgacgGUCGCcgccguccgCGGg -3'
miRNA:   3'- uCC-UGCAUGua---GGGCGa---CAGCGa--------GCC- -5'
31120 3' -56 NC_006560.1 + 43910 0.67 0.868647
Target:  5'- cGGGACGU-CGU-CCGCg--CGCUCGa -3'
miRNA:   3'- -UCCUGCAuGUAgGGCGacaGCGAGCc -5'
31120 3' -56 NC_006560.1 + 137416 0.68 0.861214
Target:  5'- cGGGCGguaccACAUCCUGCgGgagcUGUUCGGg -3'
miRNA:   3'- uCCUGCa----UGUAGGGCGaCa---GCGAGCC- -5'
31120 3' -56 NC_006560.1 + 120276 0.68 0.861214
Target:  5'- cGaGACGUGCGUCCCGUcGgcccaCGCggacUCGGu -3'
miRNA:   3'- uC-CUGCAUGUAGGGCGaCa----GCG----AGCC- -5'
31120 3' -56 NC_006560.1 + 121326 0.68 0.853578
Target:  5'- aAGGACGUGCGgaggagCCgCGCgaaGUCGCggacgaagUGGa -3'
miRNA:   3'- -UCCUGCAUGUa-----GG-GCGa--CAGCGa-------GCC- -5'
31120 3' -56 NC_006560.1 + 39628 0.68 0.853578
Target:  5'- cGGGCGUcgGCGUCCgggcgcggCGgaGUcucCGCUCGGg -3'
miRNA:   3'- uCCUGCA--UGUAGG--------GCgaCA---GCGAGCC- -5'
31120 3' -56 NC_006560.1 + 138978 0.68 0.853578
Target:  5'- uGGuCGcGCA-CCCGC-GUCGCgUCGGg -3'
miRNA:   3'- uCCuGCaUGUaGGGCGaCAGCG-AGCC- -5'
31120 3' -56 NC_006560.1 + 115548 0.68 0.845747
Target:  5'- cGGGGCGcGCcUCCCGCUcGUgGCgaacgUGGa -3'
miRNA:   3'- -UCCUGCaUGuAGGGCGA-CAgCGa----GCC- -5'
31120 3' -56 NC_006560.1 + 24397 0.68 0.845747
Target:  5'- gAGGACGUGCG-CgUGCUGgUGCUCu- -3'
miRNA:   3'- -UCCUGCAUGUaGgGCGACaGCGAGcc -5'
31120 3' -56 NC_006560.1 + 99132 0.68 0.837727
Target:  5'- cGGG-GUGCGUCUCGggGUCGC-CGGc -3'
miRNA:   3'- uCCUgCAUGUAGGGCgaCAGCGaGCC- -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.