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
18671 3' -56.7 NC_004682.1 + 13089 0.66 0.637842
Target:  5'- cGAGGGCuACCUGuCgGAGA-CCgaCGGc -3'
miRNA:   3'- -CUCCCGuUGGACuGgUUCUaGGg-GCC- -5'
18671 3' -56.7 NC_004682.1 + 41198 0.66 0.594123
Target:  5'- cGAaGGCGAaccgaCUGcACCAgcAGAUCCUCGGc -3'
miRNA:   3'- -CUcCCGUUg----GAC-UGGU--UCUAGGGGCC- -5'
18671 3' -56.7 NC_004682.1 + 40986 0.67 0.587595
Target:  5'- uGAGGcGgGugCUGAUCAccggcagccgcgacuGGGUCgCCCGGa -3'
miRNA:   3'- -CUCC-CgUugGACUGGU---------------UCUAG-GGGCC- -5'
18671 3' -56.7 NC_004682.1 + 49100 0.67 0.58325
Target:  5'- -cGGGCAACCUGGagAAGAUCUacaaaGGc -3'
miRNA:   3'- cuCCCGUUGGACUggUUCUAGGgg---CC- -5'
18671 3' -56.7 NC_004682.1 + 12985 0.67 0.572418
Target:  5'- aAGcGGCGcaucccggACCUGGCCAccaAGGUCaccgaCCCGGa -3'
miRNA:   3'- cUC-CCGU--------UGGACUGGU---UCUAG-----GGGCC- -5'
18671 3' -56.7 NC_004682.1 + 2287 0.67 0.561633
Target:  5'- cAGGGCAuccaagGCCc--CCAAGGUCCguCCGGg -3'
miRNA:   3'- cUCCCGU------UGGacuGGUUCUAGG--GGCC- -5'
18671 3' -56.7 NC_004682.1 + 31631 0.67 0.561633
Target:  5'- cGAGGaccCAACUcGACCGGGAUCaCCCaGGc -3'
miRNA:   3'- -CUCCc--GUUGGaCUGGUUCUAG-GGG-CC- -5'
18671 3' -56.7 NC_004682.1 + 41760 0.67 0.561633
Target:  5'- uGAGGGCGACCUGggggacGCUGAGGacgaguUCCgCGa -3'
miRNA:   3'- -CUCCCGUUGGAC------UGGUUCU------AGGgGCc -5'
18671 3' -56.7 NC_004682.1 + 151 0.67 0.529647
Target:  5'- cGAGGGCGGCuCUGAgccucuCCAcgGGGccUUCCUGGg -3'
miRNA:   3'- -CUCCCGUUG-GACU------GGU--UCU--AGGGGCC- -5'
18671 3' -56.7 NC_004682.1 + 36725 0.68 0.498353
Target:  5'- uGGuGGCccauCCUGACCAGGAaucggUCCuuGGc -3'
miRNA:   3'- cUC-CCGuu--GGACUGGUUCU-----AGGggCC- -5'
18671 3' -56.7 NC_004682.1 + 29702 0.68 0.498353
Target:  5'- cAGGGCgu-CUGAUggaCGAGAUCCCCuGGa -3'
miRNA:   3'- cUCCCGuugGACUG---GUUCUAGGGG-CC- -5'
18671 3' -56.7 NC_004682.1 + 28131 0.68 0.482002
Target:  5'- aGGGaGGCAcacuccccaucgaggACgUGGCCGAGAUCCUCa- -3'
miRNA:   3'- -CUC-CCGU---------------UGgACUGGUUCUAGGGGcc -5'
18671 3' -56.7 NC_004682.1 + 6569 0.68 0.477955
Target:  5'- aAGGGCAGCCUGcACCAcAGG--CUCGGc -3'
miRNA:   3'- cUCCCGUUGGAC-UGGU-UCUagGGGCC- -5'
18671 3' -56.7 NC_004682.1 + 28089 0.68 0.467911
Target:  5'- aGGaGGUGAUCUGAgUgAAGAUCUCCGGg -3'
miRNA:   3'- cUC-CCGUUGGACU-GgUUCUAGGGGCC- -5'
18671 3' -56.7 NC_004682.1 + 21431 0.69 0.448157
Target:  5'- -cGGGCGACCcGACgu---UCCCCGGc -3'
miRNA:   3'- cuCCCGUUGGaCUGguucuAGGGGCC- -5'
18671 3' -56.7 NC_004682.1 + 25997 0.7 0.410089
Target:  5'- gGAGGcGCAACCgcGCCGugcgucuggcuGGGUCCCCaGGa -3'
miRNA:   3'- -CUCC-CGUUGGacUGGU-----------UCUAGGGG-CC- -5'
18671 3' -56.7 NC_004682.1 + 33305 0.7 0.40089
Target:  5'- aGGGGGCuggguuucGGCCUGGCCccc-UCCCCGa -3'
miRNA:   3'- -CUCCCG--------UUGGACUGGuucuAGGGGCc -5'
18671 3' -56.7 NC_004682.1 + 37187 0.71 0.356921
Target:  5'- cGGcGGCGACgUGACCAAGAccgUCaCCGGc -3'
miRNA:   3'- cUC-CCGUUGgACUGGUUCU---AGgGGCC- -5'
18671 3' -56.7 NC_004682.1 + 26498 0.71 0.340307
Target:  5'- uGAGGGCAACCcGAUCcGGcuggCCCCGc -3'
miRNA:   3'- -CUCCCGUUGGaCUGGuUCua--GGGGCc -5'
18671 3' -56.7 NC_004682.1 + 9513 0.72 0.308025
Target:  5'- -cGGGCAGCUgcgucggUGACCGAGcgaagCUCCGGg -3'
miRNA:   3'- cuCCCGUUGG-------ACUGGUUCua---GGGGCC- -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.