miRNA display CGI


Results 1 - 20 of 75 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
28278 3' -40.7 NC_005902.1 + 91299 0.66 1
Target:  5'- cCCUUUAACUCCAcacaucaucaauaaUGCCuuaGgaGUUAAg- -3'
miRNA:   3'- -GGAAAUUGAGGU--------------AUGG---CaaCAAUUac -5'
28278 3' -40.7 NC_005902.1 + 29276 0.7 1
Target:  5'- --aUUAACUCCAcAUUGUUGcUGAUGa -3'
miRNA:   3'- ggaAAUUGAGGUaUGGCAACaAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 96124 0.7 1
Target:  5'- cCCUUUAAUUCUAUAUCGUcaucAAUGa -3'
miRNA:   3'- -GGAAAUUGAGGUAUGGCAacaaUUAC- -5'
28278 3' -40.7 NC_005902.1 + 166125 0.7 1
Target:  5'- cCCUUUAACUUCAcaucauugaugaUACUuugUGUUAAUGa -3'
miRNA:   3'- -GGAAAUUGAGGU------------AUGGca-ACAAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 10734 0.71 1
Target:  5'- cCCUUUAACUCUuaagaUGUUGUUAAc- -3'
miRNA:   3'- -GGAAAUUGAGGuaug-GCAACAAUUac -5'
28278 3' -40.7 NC_005902.1 + 139816 0.69 1
Target:  5'- cCUUUUAACUCCA---UGUUGUcAAUGa -3'
miRNA:   3'- -GGAAAUUGAGGUaugGCAACAaUUAC- -5'
28278 3' -40.7 NC_005902.1 + 134099 0.71 1
Target:  5'- uUCUUUAAUUUCAUAUUGUcauUGUUGAUa -3'
miRNA:   3'- -GGAAAUUGAGGUAUGGCA---ACAAUUAc -5'
28278 3' -40.7 NC_005902.1 + 105999 0.66 1
Target:  5'- cUCUUUAACUCCuaa--GUUGUUcucAAUGa -3'
miRNA:   3'- -GGAAAUUGAGGuauggCAACAA---UUAC- -5'
28278 3' -40.7 NC_005902.1 + 136638 0.7 1
Target:  5'- uCCUUUAACUUCAUGCauca-UUGAUGa -3'
miRNA:   3'- -GGAAAUUGAGGUAUGgcaacAAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 39401 0.69 1
Target:  5'- cCUUUUAACUCCAUAUUGaugaugcuUUGUUAu-- -3'
miRNA:   3'- -GGAAAUUGAGGUAUGGC--------AACAAUuac -5'
28278 3' -40.7 NC_005902.1 + 17055 0.69 1
Target:  5'- cCUUUUAACUCUAUGuuGUcaUUGAUGa -3'
miRNA:   3'- -GGAAAUUGAGGUAUggCAacAAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 113964 0.69 1
Target:  5'- cCCUUUAACUuuGUAUUGUUaaUGAUGc -3'
miRNA:   3'- -GGAAAUUGAggUAUGGCAAcaAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 125952 0.66 1
Target:  5'- cUCUUUAACUUCuaagGCa-UUGUUGAUGa -3'
miRNA:   3'- -GGAAAUUGAGGua--UGgcAACAAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 136424 0.66 1
Target:  5'- --aUUAACUCUAUGCUGUuauaacacuuuauguUGUUAAc- -3'
miRNA:   3'- ggaAAUUGAGGUAUGGCA---------------ACAAUUac -5'
28278 3' -40.7 NC_005902.1 + 114991 0.66 1
Target:  5'- cCCUUUAACUCUAcAUCGUcaccGAUGa -3'
miRNA:   3'- -GGAAAUUGAGGUaUGGCAacaaUUAC- -5'
28278 3' -40.7 NC_005902.1 + 69406 0.67 1
Target:  5'- cCCUUUAACUUCAUAUCa---UUAAUGc -3'
miRNA:   3'- -GGAAAUUGAGGUAUGGcaacAAUUAC- -5'
28278 3' -40.7 NC_005902.1 + 33490 0.67 1
Target:  5'- uCCUUUAACUCUAUAUUGUc------- -3'
miRNA:   3'- -GGAAAUUGAGGUAUGGCAacaauuac -5'
28278 3' -40.7 NC_005902.1 + 100455 0.68 1
Target:  5'- uCCUUUAACUCCAcauuguaauaaUGCUuuGggGUUAAa- -3'
miRNA:   3'- -GGAAAUUGAGGU-----------AUGG--CaaCAAUUac -5'
28278 3' -40.7 NC_005902.1 + 53092 0.68 1
Target:  5'- uCCUUUAACUCUuaagGUAUUGUUGaUGAc- -3'
miRNA:   3'- -GGAAAUUGAGG----UAUGGCAACaAUUac -5'
28278 3' -40.7 NC_005902.1 + 134505 0.68 1
Target:  5'- cCCcUUAACUUCAcACCaUUGUUAAUa -3'
miRNA:   3'- -GGaAAUUGAGGUaUGGcAACAAUUAc -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.