miRNA display CGI


Results 1 - 20 of 28 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
7360 3' -57.1 NC_001900.1 + 41970 1.12 0.000427
Target:  5'- gGGCCGAAGCCGUCCGACUCGCGAUGGa -3'
miRNA:   3'- -CCGGCUUCGGCAGGCUGAGCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 16420 0.76 0.184514
Target:  5'- cGCCGAAGCCagGUUCGuucGC-CGCGAUGGu -3'
miRNA:   3'- cCGGCUUCGG--CAGGC---UGaGCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 47222 0.74 0.23307
Target:  5'- aGGCCGAGGCCGUcacCCGGCUUucCGG-GGa -3'
miRNA:   3'- -CCGGCUUCGGCA---GGCUGAGc-GCUaCC- -5'
7360 3' -57.1 NC_001900.1 + 6793 0.71 0.360977
Target:  5'- aGCUGAAGCUGgacgCgGACcccuacgcggacuUCGCGAUGGc -3'
miRNA:   3'- cCGGCUUCGGCa---GgCUG-------------AGCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 25978 0.71 0.370261
Target:  5'- uGCUGGAGcCCGgaggcuacCUGGCUCGCGGUGu -3'
miRNA:   3'- cCGGCUUC-GGCa-------GGCUGAGCGCUACc -5'
7360 3' -57.1 NC_001900.1 + 25758 0.7 0.396398
Target:  5'- aGCCGggGCCGaCCG-C-CGUGGUGu -3'
miRNA:   3'- cCGGCuuCGGCaGGCuGaGCGCUACc -5'
7360 3' -57.1 NC_001900.1 + 15421 0.7 0.423693
Target:  5'- aGGCCGguGuCCGUCgCGACgaCGCGAUc- -3'
miRNA:   3'- -CCGGCuuC-GGCAG-GCUGa-GCGCUAcc -5'
7360 3' -57.1 NC_001900.1 + 24898 0.69 0.4785
Target:  5'- cGGCgGGAGCCGacaucuucugggcaUCCGACguguugUCGaccaGGUGGa -3'
miRNA:   3'- -CCGgCUUCGGC--------------AGGCUG------AGCg---CUACC- -5'
7360 3' -57.1 NC_001900.1 + 21591 0.69 0.481482
Target:  5'- cGGCCGGcucaaGGCCGUgCGGCUCGg----- -3'
miRNA:   3'- -CCGGCU-----UCGGCAgGCUGAGCgcuacc -5'
7360 3' -57.1 NC_001900.1 + 34869 0.68 0.490482
Target:  5'- cGGCCcaGAGGCCGUgCCGccgaacgucuucaGCUUGCGAc-- -3'
miRNA:   3'- -CCGG--CUUCGGCA-GGC-------------UGAGCGCUacc -5'
7360 3' -57.1 NC_001900.1 + 10218 0.68 0.491487
Target:  5'- uGCaGAGGCUGUCCGAaUCGCaGAgGGa -3'
miRNA:   3'- cCGgCUUCGGCAGGCUgAGCG-CUaCC- -5'
7360 3' -57.1 NC_001900.1 + 5599 0.68 0.491487
Target:  5'- cGCUGGAGCUGUCgGAgcUGCGcUGGg -3'
miRNA:   3'- cCGGCUUCGGCAGgCUgaGCGCuACC- -5'
7360 3' -57.1 NC_001900.1 + 16785 0.68 0.491487
Target:  5'- cGGCUcGGGCCGUucugCCGAacaugaccaaCUCGCcGAUGGu -3'
miRNA:   3'- -CCGGcUUCGGCA----GGCU----------GAGCG-CUACC- -5'
7360 3' -57.1 NC_001900.1 + 45268 0.67 0.542832
Target:  5'- cGUCGAGGUCacgCCGAC-CGCGAaGGu -3'
miRNA:   3'- cCGGCUUCGGca-GGCUGaGCGCUaCC- -5'
7360 3' -57.1 NC_001900.1 + 9138 0.67 0.563878
Target:  5'- gGGCCGGgugguGGCCGUCCGAUgacaGCc---- -3'
miRNA:   3'- -CCGGCU-----UCGGCAGGCUGag--CGcuacc -5'
7360 3' -57.1 NC_001900.1 + 15274 0.67 0.568114
Target:  5'- uGGUCGAGGCCGUggccgcacgguucggCCGAgaCGcCGA-GGa -3'
miRNA:   3'- -CCGGCUUCGGCA---------------GGCUgaGC-GCUaCC- -5'
7360 3' -57.1 NC_001900.1 + 18510 0.67 0.574483
Target:  5'- cGGCUG-AGCUGUCU--CagGCGAUGGa -3'
miRNA:   3'- -CCGGCuUCGGCAGGcuGagCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 12746 0.67 0.585133
Target:  5'- gGGCCGGAucgucGcCCGUCCGACcauccUCaGCGAccacgucgUGGa -3'
miRNA:   3'- -CCGGCUU-----C-GGCAGGCUG-----AG-CGCU--------ACC- -5'
7360 3' -57.1 NC_001900.1 + 41086 0.66 0.606538
Target:  5'- gGGCC-AGGCCGg-UGAcCUCGCGGccgUGGa -3'
miRNA:   3'- -CCGGcUUCGGCagGCU-GAGCGCU---ACC- -5'
7360 3' -57.1 NC_001900.1 + 40324 0.66 0.606538
Target:  5'- cGGCCGugguuGGCCGcgUCGAg-UGCGAUGa -3'
miRNA:   3'- -CCGGCu----UCGGCa-GGCUgaGCGCUACc -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.