miRNA display CGI


Results 1 - 20 of 73 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
8047 3' -60.2 NC_001973.1 + 56532 0.66 0.782151
Target:  5'- aGCUCgggcggGGCGGgCUcgGCGCCGAgCucgauauCGGg -3'
miRNA:   3'- gCGAGa-----UCGCCgGA--CGCGGCU-Gu------GCC- -5'
8047 3' -60.2 NC_001973.1 + 96041 0.66 0.781262
Target:  5'- aGCUCgggcugGGCGGUCUguucGCgugggagaucgacGCCGACAaCGGc -3'
miRNA:   3'- gCGAGa-----UCGCCGGA----CG-------------CGGCUGU-GCC- -5'
8047 3' -60.2 NC_001973.1 + 81109 0.66 0.781262
Target:  5'- gGCUCguugaaGGCGcGCUUGCGCCccgacguGACGCu- -3'
miRNA:   3'- gCGAGa-----UCGC-CGGACGCGG-------CUGUGcc -5'
8047 3' -60.2 NC_001973.1 + 30398 0.66 0.776799
Target:  5'- gCGCggCggcGGCGGCggagGCGCCGcgaacugccgacggcACACGGg -3'
miRNA:   3'- -GCGa-Ga--UCGCCGga--CGCGGC---------------UGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 64877 0.66 0.773207
Target:  5'- gGCUC--GCGcCCgaaGUGCUGGCGCGGg -3'
miRNA:   3'- gCGAGauCGCcGGa--CGCGGCUGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 145141 0.66 0.773207
Target:  5'- gGCUCUGGacuCGGUCcgguucugguUGCGCaccaagagcaaCGACGCGGu -3'
miRNA:   3'- gCGAGAUC---GCCGG----------ACGCG-----------GCUGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 45956 0.66 0.773207
Target:  5'- gCGCUCUugacGGCGGCCgGCGCgcuCGCc- -3'
miRNA:   3'- -GCGAGA----UCGCCGGaCGCGgcuGUGcc -5'
8047 3' -60.2 NC_001973.1 + 16979 0.66 0.764147
Target:  5'- uGgUCgUGGCGGCC-GCGCCcGCcauCGGa -3'
miRNA:   3'- gCgAG-AUCGCCGGaCGCGGcUGu--GCC- -5'
8047 3' -60.2 NC_001973.1 + 95010 0.66 0.764147
Target:  5'- uGCUgUA-CGGCUUcGUGCCGAUguGCGGc -3'
miRNA:   3'- gCGAgAUcGCCGGA-CGCGGCUG--UGCC- -5'
8047 3' -60.2 NC_001973.1 + 95766 0.66 0.764147
Target:  5'- uGCUCggcGUGGCCaUGUaCgGGCGCGGc -3'
miRNA:   3'- gCGAGau-CGCCGG-ACGcGgCUGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 7825 0.66 0.764147
Target:  5'- gCGCUCUcuguugagaacgGGCGGCgCcGCGCCcgucgagcuGGCGCGc -3'
miRNA:   3'- -GCGAGA------------UCGCCG-GaCGCGG---------CUGUGCc -5'
8047 3' -60.2 NC_001973.1 + 30335 0.66 0.764147
Target:  5'- gGCUUUGaaaucgucgcGCaGGCCgaguucggGcCGCCGGCGCGGc -3'
miRNA:   3'- gCGAGAU----------CG-CCGGa-------C-GCGGCUGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 109183 0.66 0.764147
Target:  5'- gCGCUCgccgAGCGcGCCgcGCaGCCGGCccagcuCGGc -3'
miRNA:   3'- -GCGAGa---UCGC-CGGa-CG-CGGCUGu-----GCC- -5'
8047 3' -60.2 NC_001973.1 + 77372 0.66 0.764147
Target:  5'- cCGCgcgCccGCGcGCCgGCGCCGACGuuuUGGu -3'
miRNA:   3'- -GCGa--GauCGC-CGGaCGCGGCUGU---GCC- -5'
8047 3' -60.2 NC_001973.1 + 28422 0.66 0.754979
Target:  5'- gCGCU-UGGCGGCCgcgGcCGCCGcCGCc- -3'
miRNA:   3'- -GCGAgAUCGCCGGa--C-GCGGCuGUGcc -5'
8047 3' -60.2 NC_001973.1 + 59148 0.66 0.754979
Target:  5'- aCGCgacgaUCUGGCGGUCgaGUGCuacauCGugACGGa -3'
miRNA:   3'- -GCG-----AGAUCGCCGGa-CGCG-----GCugUGCC- -5'
8047 3' -60.2 NC_001973.1 + 45198 0.66 0.745711
Target:  5'- gCGCUCgaucUGGCCggGCGC-GAUGCGGg -3'
miRNA:   3'- -GCGAGauc-GCCGGa-CGCGgCUGUGCC- -5'
8047 3' -60.2 NC_001973.1 + 56342 0.66 0.745711
Target:  5'- gCGCUC--GCGGCCgcgcucggGCcCCGACuCGGc -3'
miRNA:   3'- -GCGAGauCGCCGGa-------CGcGGCUGuGCC- -5'
8047 3' -60.2 NC_001973.1 + 59349 0.66 0.73635
Target:  5'- aCGCggugCUGGCGGCCcacgcgcucaaucccGCGCCGcugaucaACGCGc -3'
miRNA:   3'- -GCGa---GAUCGCCGGa--------------CGCGGC-------UGUGCc -5'
8047 3' -60.2 NC_001973.1 + 53362 0.66 0.73635
Target:  5'- uGCUCUcgaaagucgacGGCGacgacgcccgccGCCUccucgccCGCCGGCACGGg -3'
miRNA:   3'- gCGAGA-----------UCGC------------CGGAc------GCGGCUGUGCC- -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.