miRNA display CGI


Results 1 - 20 of 22 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
12603 5' -53.2 NC_003345.1 + 41817 0.66 0.908416
Target:  5'- uGCGGCGucacucuCGGUcGCauuuucgagagcaauUCCGACGAUUCu -3'
miRNA:   3'- cUGCUGCu------GCCAcUG---------------AGGCUGCUAAG- -5'
12603 5' -53.2 NC_003345.1 + 65929 0.66 0.905831
Target:  5'- aGACGAgCGACGGUGAg-CUGGuCGAa-- -3'
miRNA:   3'- -CUGCU-GCUGCCACUgaGGCU-GCUaag -5'
12603 5' -53.2 NC_003345.1 + 45347 0.66 0.905831
Target:  5'- gGACGAUugcGCGGUGugUcCCGAgugcUGGUUCu -3'
miRNA:   3'- -CUGCUGc--UGCCACugA-GGCU----GCUAAG- -5'
12603 5' -53.2 NC_003345.1 + 50140 0.66 0.892286
Target:  5'- cGGCaACGAaggcucCGGcGGCUCCGGCGGUg- -3'
miRNA:   3'- -CUGcUGCU------GCCaCUGAGGCUGCUAag -5'
12603 5' -53.2 NC_003345.1 + 49647 0.67 0.879977
Target:  5'- uGCGGCGGuuagugaggauacuuUGGUGGCUgaaaaucCCGACGAcUCg -3'
miRNA:   3'- cUGCUGCU---------------GCCACUGA-------GGCUGCUaAG- -5'
12603 5' -53.2 NC_003345.1 + 52519 0.67 0.87773
Target:  5'- cGACaACGACGGgcagguugcUGACgCCGAgaCGGUUCa -3'
miRNA:   3'- -CUGcUGCUGCC---------ACUGaGGCU--GCUAAG- -5'
12603 5' -53.2 NC_003345.1 + 55678 0.67 0.862205
Target:  5'- uGACGcCGAUGGgGACUCCcaaggugguGACGGUa- -3'
miRNA:   3'- -CUGCuGCUGCCaCUGAGG---------CUGCUAag -5'
12603 5' -53.2 NC_003345.1 + 44242 0.67 0.850787
Target:  5'- aGACaGACGAUGGUGAUguugaacucauccCCGAgGAUUa -3'
miRNA:   3'- -CUG-CUGCUGCCACUGa------------GGCUgCUAAg -5'
12603 5' -53.2 NC_003345.1 + 40184 0.68 0.845761
Target:  5'- aACGGCGACGaGcGAgacuacCUCCGACGAg-- -3'
miRNA:   3'- cUGCUGCUGC-CaCU------GAGGCUGCUaag -5'
12603 5' -53.2 NC_003345.1 + 57438 0.68 0.826683
Target:  5'- -cCGAgGACGGUGaguggucGCUCCGACucgauguGGUUCc -3'
miRNA:   3'- cuGCUgCUGCCAC-------UGAGGCUG-------CUAAG- -5'
12603 5' -53.2 NC_003345.1 + 45506 0.68 0.819505
Target:  5'- gGACGACGAgGGcGAC-CgCGACGAc-- -3'
miRNA:   3'- -CUGCUGCUgCCaCUGaG-GCUGCUaag -5'
12603 5' -53.2 NC_003345.1 + 2618 0.68 0.819505
Target:  5'- cGGCGACGGCGGUaguGACaCCGAagaCGGUc- -3'
miRNA:   3'- -CUGCUGCUGCCA---CUGaGGCU---GCUAag -5'
12603 5' -53.2 NC_003345.1 + 73511 0.68 0.810364
Target:  5'- -cCGGCGGCGGUGGCUgaG-CGAaUCu -3'
miRNA:   3'- cuGCUGCUGCCACUGAggCuGCUaAG- -5'
12603 5' -53.2 NC_003345.1 + 21717 0.68 0.801043
Target:  5'- aGCGGCucgcuCGGUggcGACUCCGGCGGUg- -3'
miRNA:   3'- cUGCUGcu---GCCA---CUGAGGCUGCUAag -5'
12603 5' -53.2 NC_003345.1 + 67353 0.69 0.77112
Target:  5'- cGGCGAaauacgcUGACGGUGGC-CCucCGGUUCa -3'
miRNA:   3'- -CUGCU-------GCUGCCACUGaGGcuGCUAAG- -5'
12603 5' -53.2 NC_003345.1 + 23731 0.69 0.752107
Target:  5'- uGACGACGcCGGaGACgaugCCGACGcucagcagucGUUCg -3'
miRNA:   3'- -CUGCUGCuGCCaCUGa---GGCUGC----------UAAG- -5'
12603 5' -53.2 NC_003345.1 + 52778 0.7 0.741927
Target:  5'- uACGAUGGCGGcuaugaugcucuUGACUCCGAgGGc-- -3'
miRNA:   3'- cUGCUGCUGCC------------ACUGAGGCUgCUaag -5'
12603 5' -53.2 NC_003345.1 + 50789 0.71 0.689644
Target:  5'- aACGGCGGCGGUGGaaaCGGCGGg-- -3'
miRNA:   3'- cUGCUGCUGCCACUgagGCUGCUaag -5'
12603 5' -53.2 NC_003345.1 + 32709 0.72 0.625258
Target:  5'- -cCGGCuACGGcGGC-CCGACGAUUCa -3'
miRNA:   3'- cuGCUGcUGCCaCUGaGGCUGCUAAG- -5'
12603 5' -53.2 NC_003345.1 + 72410 0.78 0.319247
Target:  5'- --gGGCGGCGGUGGCcCCGACGAc-- -3'
miRNA:   3'- cugCUGCUGCCACUGaGGCUGCUaag -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.