miRNA display CGI


Results 1 - 20 of 23 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
18162 3' -54.8 NC_004680.1 + 17220 0.66 0.795252
Target:  5'- --cGGUGUGGCGCA---AUCGGaGCGGc -3'
miRNA:   3'- ccaCCGCACUGUGUcucUAGUC-CGCC- -5'
18162 3' -54.8 NC_004680.1 + 19566 0.66 0.789464
Target:  5'- cGG-GGgGUGACACGuauuccauugucgcuGAGggCGGcGCGGc -3'
miRNA:   3'- -CCaCCgCACUGUGU---------------CUCuaGUC-CGCC- -5'
18162 3' -54.8 NC_004680.1 + 27853 0.66 0.785573
Target:  5'- cGGUGGUG-GACGCgcuGGGcgcGAUCGGcGCGa -3'
miRNA:   3'- -CCACCGCaCUGUG---UCU---CUAGUC-CGCc -5'
18162 3' -54.8 NC_004680.1 + 46117 0.66 0.775738
Target:  5'- cGGUGGUgGUGAauucgGCGGuGAcgGGGCGGc -3'
miRNA:   3'- -CCACCG-CACUg----UGUCuCUagUCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 54982 0.66 0.775738
Target:  5'- cGGUGGCGggu--CGGAauGAaacgUCGGGCGGc -3'
miRNA:   3'- -CCACCGCacuguGUCU--CU----AGUCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 28384 0.66 0.775738
Target:  5'- cGGUGGCGUGAaCGCAucGAaaccCAcGGCGc -3'
miRNA:   3'- -CCACCGCACU-GUGUcuCUa---GU-CCGCc -5'
18162 3' -54.8 NC_004680.1 + 55205 0.66 0.755645
Target:  5'- cGGUGGgGUGGCuucgauGCGGuccaGGAUCAGcUGGg -3'
miRNA:   3'- -CCACCgCACUG------UGUC----UCUAGUCcGCC- -5'
18162 3' -54.8 NC_004680.1 + 34130 0.66 0.755645
Target:  5'- aGGUGGUGUGcCGC-GAGuugugcGGCGGc -3'
miRNA:   3'- -CCACCGCACuGUGuCUCuagu--CCGCC- -5'
18162 3' -54.8 NC_004680.1 + 19687 0.67 0.745408
Target:  5'- gGGcGGCGgaGAC-CAGaAGGUCauGGGCGGc -3'
miRNA:   3'- -CCaCCGCa-CUGuGUC-UCUAG--UCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 56583 0.67 0.72461
Target:  5'- uGUGGCGUGGCGuguuGAGuUUGcGGCGGu -3'
miRNA:   3'- cCACCGCACUGUgu--CUCuAGU-CCGCC- -5'
18162 3' -54.8 NC_004680.1 + 25113 0.67 0.714071
Target:  5'- cGGUGGCcu-AUACGGAGGUgGugguGGCGGu -3'
miRNA:   3'- -CCACCGcacUGUGUCUCUAgU----CCGCC- -5'
18162 3' -54.8 NC_004680.1 + 4302 0.68 0.682023
Target:  5'- -aUGGCGUGAC-CAGAaGuucUCAGGCc- -3'
miRNA:   3'- ccACCGCACUGuGUCU-Cu--AGUCCGcc -5'
18162 3' -54.8 NC_004680.1 + 42088 0.68 0.63869
Target:  5'- aGUGcCGccgGGCGCAGAGGUgGGGCGc -3'
miRNA:   3'- cCACcGCa--CUGUGUCUCUAgUCCGCc -5'
18162 3' -54.8 NC_004680.1 + 47684 0.69 0.627817
Target:  5'- cGGUGGCGcgguucGGCugAGgaaaccacGGAUCguAGGCGGc -3'
miRNA:   3'- -CCACCGCa-----CUGugUC--------UCUAG--UCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 36669 0.69 0.624556
Target:  5'- aGGUccaGGCGUGgggaaccaagcaggGCAUcGAGAUCaagcAGGCGGa -3'
miRNA:   3'- -CCA---CCGCAC--------------UGUGuCUCUAG----UCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 12510 0.69 0.595259
Target:  5'- cGGUGGUG-GGCAgCGGggcuGGGUUAGGCGc -3'
miRNA:   3'- -CCACCGCaCUGU-GUC----UCUAGUCCGCc -5'
18162 3' -54.8 NC_004680.1 + 22786 0.69 0.595259
Target:  5'- cGGUGGCgGUGGCGuuCAGGuAggAGGCGGc -3'
miRNA:   3'- -CCACCG-CACUGU--GUCUcUagUCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 31918 0.69 0.595259
Target:  5'- gGGUcGGUGUGGCGgAGGcuugccGAUCAGGCc- -3'
miRNA:   3'- -CCA-CCGCACUGUgUCU------CUAGUCCGcc -5'
18162 3' -54.8 NC_004680.1 + 57526 0.69 0.584455
Target:  5'- gGGUGGCG--GCGCGGuug-UAGGCGGc -3'
miRNA:   3'- -CCACCGCacUGUGUCucuaGUCCGCC- -5'
18162 3' -54.8 NC_004680.1 + 25057 0.7 0.552309
Target:  5'- cGGUGGCGguggGGC-CGGucgGGAUCGGGUa- -3'
miRNA:   3'- -CCACCGCa---CUGuGUC---UCUAGUCCGcc -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.