miRNA display CGI


Results 1 - 18 of 18 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
17274 3' -52 NC_004367.1 + 116354 1.12 0.004753
Target:  5'- uCCCACCCUACAGGUUAAUCCUCCUGGu -3'
miRNA:   3'- -GGGUGGGAUGUCCAAUUAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 23297 1.12 0.004753
Target:  5'- uCCCACCCUACAGGUUAAUCCUCCUGGu -3'
miRNA:   3'- -GGGUGGGAUGUCCAAUUAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 56659 1.09 0.008124
Target:  5'- uCCCACCCUAUAGGUUAAUCCUCCUGGu -3'
miRNA:   3'- -GGGUGGGAUGUCCAAUUAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 9813 0.76 0.632764
Target:  5'- aUCCACUCUGCAGGUUGuaug-CCUGGc -3'
miRNA:   3'- -GGGUGGGAUGUCCAAUuaggaGGACC- -5'
17274 3' -52 NC_004367.1 + 51251 0.72 0.853471
Target:  5'- cCCCAUCUUACGGGcag--CCuugUCCUGGa -3'
miRNA:   3'- -GGGUGGGAUGUCCaauuaGG---AGGACC- -5'
17274 3' -52 NC_004367.1 + 13264 0.72 0.845405
Target:  5'- gCCAUCCUGCAuGGg--GUCCUUCUGu -3'
miRNA:   3'- gGGUGGGAUGU-CCaauUAGGAGGACc -5'
17274 3' -52 NC_004367.1 + 103445 0.69 0.93762
Target:  5'- gCUACUUUACAGGUUucugGAUCUggaccagCCUGGu -3'
miRNA:   3'- gGGUGGGAUGUCCAA----UUAGGa------GGACC- -5'
17274 3' -52 NC_004367.1 + 56478 0.69 0.946926
Target:  5'- cUCCGCCCUGUGGGUugUAGUCCcaUUGGg -3'
miRNA:   3'- -GGGUGGGAUGUCCA--AUUAGGagGACC- -5'
17274 3' -52 NC_004367.1 + 92278 0.68 0.966031
Target:  5'- gCCCuguCCCUugAcauccGUaugaGGUCCUCCUGGg -3'
miRNA:   3'- -GGGu--GGGAugUc----CAa---UUAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 5840 0.68 0.962321
Target:  5'- uCCCACguaccuuCCUGCAGG--GAUCCcagUCCgUGGg -3'
miRNA:   3'- -GGGUG-------GGAUGUCCaaUUAGG---AGG-ACC- -5'
17274 3' -52 NC_004367.1 + 7539 0.67 0.976615
Target:  5'- aCCC-CCCUACccauaaaguaaccuAGGUUA--CCcgCCUGGa -3'
miRNA:   3'- -GGGuGGGAUG--------------UCCAAUuaGGa-GGACC- -5'
17274 3' -52 NC_004367.1 + 29996 0.66 0.985616
Target:  5'- gUCCACCC--CGGGgcGAUCCgCCgGGc -3'
miRNA:   3'- -GGGUGGGauGUCCaaUUAGGaGGaCC- -5'
17274 3' -52 NC_004367.1 + 116173 0.66 0.987264
Target:  5'- cUCCGCCCUcUGGGUugUAGUCCcaUUGGg -3'
miRNA:   3'- -GGGUGGGAuGUCCA--AUUAGGagGACC- -5'
17274 3' -52 NC_004367.1 + 29622 0.66 0.987264
Target:  5'- gCCACuCCUACugucuGGGUgccAUCCUauggccCCUGGu -3'
miRNA:   3'- gGGUG-GGAUG-----UCCAau-UAGGA------GGACC- -5'
17274 3' -52 NC_004367.1 + 23116 0.66 0.987264
Target:  5'- cUCCGCCCUcUGGGUugUAGUCCcaUUGGg -3'
miRNA:   3'- -GGGUGGGAuGUCCA--AUUAGGagGACC- -5'
17274 3' -52 NC_004367.1 + 116415 0.66 0.990122
Target:  5'- uCUCACUCaGCuGaGUUAuUCCUUCUGGu -3'
miRNA:   3'- -GGGUGGGaUGuC-CAAUuAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 56720 0.66 0.990122
Target:  5'- uCUCACUCaGCuGaGUUAuUCCUUCUGGu -3'
miRNA:   3'- -GGGUGGGaUGuC-CAAUuAGGAGGACC- -5'
17274 3' -52 NC_004367.1 + 23358 0.66 0.990122
Target:  5'- uCUCACUCaGCuGaGUUAuUCCUUCUGGu -3'
miRNA:   3'- -GGGUGGGaUGuC-CAAUuAGGAGGACC- -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.