miRNA display CGI


Results 1 - 20 of 31 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
30149 3' -56.1 NC_006273.1 + 208805 0.66 0.940261
Target:  5'- cGAUGGgcGCUGUGGCgcacagguugagccCgGCGGUGGUg -3'
miRNA:   3'- -UUGUCuuCGACGCCGa-------------GaCGCCAUCA- -5'
30149 3' -56.1 NC_006273.1 + 167427 0.66 0.938379
Target:  5'- cACAGuGGCggGCGcGCUCUcgGCGGUcAGUa -3'
miRNA:   3'- uUGUCuUCGa-CGC-CGAGA--CGCCA-UCA- -5'
30149 3' -56.1 NC_006273.1 + 36452 0.66 0.938379
Target:  5'- cGGCAGggGCaUGCGGC-CUuaGCGGcucGGg -3'
miRNA:   3'- -UUGUCuuCG-ACGCCGaGA--CGCCa--UCa -5'
30149 3' -56.1 NC_006273.1 + 188698 0.66 0.933509
Target:  5'- cGCAGGucccGCaauacgucGCGGCUgUUGCGGUAGUg -3'
miRNA:   3'- uUGUCUu---CGa-------CGCCGA-GACGCCAUCA- -5'
30149 3' -56.1 NC_006273.1 + 225851 0.66 0.928403
Target:  5'- cGGCAGAAGCUGCgugGGUggaUGaugaGGUAGa -3'
miRNA:   3'- -UUGUCUUCGACG---CCGag-ACg---CCAUCa -5'
30149 3' -56.1 NC_006273.1 + 37379 0.66 0.927879
Target:  5'- cGCGGAGGUuugucugGCGGCuuauguuUCUGgGGUGGg -3'
miRNA:   3'- uUGUCUUCGa------CGCCG-------AGACgCCAUCa -5'
30149 3' -56.1 NC_006273.1 + 165139 0.66 0.92306
Target:  5'- gGugGGGAGCUGCGGU--UGCGuGUAc- -3'
miRNA:   3'- -UugUCUUCGACGCCGagACGC-CAUca -5'
30149 3' -56.1 NC_006273.1 + 41072 0.66 0.92306
Target:  5'- gGACGGggGacucuUGCGGCgggGaCGGUGGUg -3'
miRNA:   3'- -UUGUCuuCg----ACGCCGagaC-GCCAUCA- -5'
30149 3' -56.1 NC_006273.1 + 1134 0.66 0.92306
Target:  5'- gGACGGggGacucuUGCGGCgggGaCGGUGGUg -3'
miRNA:   3'- -UUGUCuuCg----ACGCCGagaC-GCCAUCA- -5'
30149 3' -56.1 NC_006273.1 + 162366 0.66 0.91748
Target:  5'- --uGGAGGCgGCGGCgCUaGUGGUGGc -3'
miRNA:   3'- uugUCUUCGaCGCCGaGA-CGCCAUCa -5'
30149 3' -56.1 NC_006273.1 + 22111 0.66 0.916909
Target:  5'- cGGCGGAGGaaacugccGCGGgagaagcCUCUGCGGUAGc -3'
miRNA:   3'- -UUGUCUUCga------CGCC-------GAGACGCCAUCa -5'
30149 3' -56.1 NC_006273.1 + 178517 0.67 0.911665
Target:  5'- gAACAGcGGCaaaucgcgugGCGGCg--GCGGUGGUa -3'
miRNA:   3'- -UUGUCuUCGa---------CGCCGagaCGCCAUCA- -5'
30149 3' -56.1 NC_006273.1 + 229561 0.67 0.911071
Target:  5'- cGACAGAuGCgGCGGUuacaccgUCUGUGGUGu- -3'
miRNA:   3'- -UUGUCUuCGaCGCCG-------AGACGCCAUca -5'
30149 3' -56.1 NC_006273.1 + 80380 0.68 0.871952
Target:  5'- aAGCGGGAGCgGCGGC-CgugGCGGcGGc -3'
miRNA:   3'- -UUGUCUUCGaCGCCGaGa--CGCCaUCa -5'
30149 3' -56.1 NC_006273.1 + 163076 0.68 0.871952
Target:  5'- aGGCGGcGGCgacgGCGGCggCUGCGG-GGUu -3'
miRNA:   3'- -UUGUCuUCGa---CGCCGa-GACGCCaUCA- -5'
30149 3' -56.1 NC_006273.1 + 192753 0.68 0.856966
Target:  5'- uGGCAGAcGCgGUGGCaguuugcggUCUGCGGUaAGUg -3'
miRNA:   3'- -UUGUCUuCGaCGCCG---------AGACGCCA-UCA- -5'
30149 3' -56.1 NC_006273.1 + 162990 0.68 0.856966
Target:  5'- --aGGAGGCUcgacgGCGGCagCUGCGGcGGUa -3'
miRNA:   3'- uugUCUUCGA-----CGCCGa-GACGCCaUCA- -5'
30149 3' -56.1 NC_006273.1 + 21711 0.68 0.849168
Target:  5'- cGCAGGccuuugucGGC-GCGGCUCUucucgcccugGCGGUAGa -3'
miRNA:   3'- uUGUCU--------UCGaCGCCGAGA----------CGCCAUCa -5'
30149 3' -56.1 NC_006273.1 + 40025 0.68 0.849168
Target:  5'- cGACGGcgacuAGUUGCGuGUgCUGCGGUGGg -3'
miRNA:   3'- -UUGUCu----UCGACGC-CGaGACGCCAUCa -5'
30149 3' -56.1 NC_006273.1 + 87 0.68 0.849168
Target:  5'- cGACGGcgacuAGUUGCGuGUgCUGCGGUGGg -3'
miRNA:   3'- -UUGUCu----UCGACGC-CGaGACGCCAUCa -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.