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
29009 3' -48.3 NC_006146.1 + 59810 0.66 0.999443
Target:  5'- -aUCUGAUGcAGAUgucgcgGGACCGGGc--- -3'
miRNA:   3'- acAGACUAU-UCUGa-----CCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 71673 0.66 0.999307
Target:  5'- --cCUGAgccAGGACUGGAgCUAGGUc-- -3'
miRNA:   3'- acaGACUa--UUCUGACCU-GGUCCAaau -5'
29009 3' -48.3 NC_006146.1 + 109186 0.66 0.999143
Target:  5'- aGUCUGAggcccagacagAGGGCUGGACUGGcGg--- -3'
miRNA:   3'- aCAGACUa----------UUCUGACCUGGUC-Caaau -5'
29009 3' -48.3 NC_006146.1 + 27484 0.66 0.999143
Target:  5'- uUGUCUGcUGGGACUGGuuUUAGGa--- -3'
miRNA:   3'- -ACAGACuAUUCUGACCu-GGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 54719 0.66 0.998882
Target:  5'- aUGggCUGGUGGGAUUugccuucucugagcGGACCAGGg--- -3'
miRNA:   3'- -ACa-GACUAUUCUGA--------------CCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 147034 0.67 0.998117
Target:  5'- aGUUUGAUAGaauGACgguaccacgcaaUGGGCCAGGUc-- -3'
miRNA:   3'- aCAGACUAUU---CUG------------ACCUGGUCCAaau -5'
29009 3' -48.3 NC_006146.1 + 92171 0.67 0.997739
Target:  5'- cG-CUGAcauuGGCUGGGCguGGUUUAc -3'
miRNA:   3'- aCaGACUauu-CUGACCUGguCCAAAU- -5'
29009 3' -48.3 NC_006146.1 + 14526 0.67 0.997301
Target:  5'- aUGgggCUGGaGAGcCUGGACCGGGc--- -3'
miRNA:   3'- -ACa--GACUaUUCuGACCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 145785 0.68 0.996209
Target:  5'- aGUCUGAUGGGcACUauGuACCAGGUg-- -3'
miRNA:   3'- aCAGACUAUUC-UGA--CcUGGUCCAaau -5'
29009 3' -48.3 NC_006146.1 + 26487 0.69 0.991844
Target:  5'- gUGUCUGGUGAGAUgugUGGGCUugccuGGGa--- -3'
miRNA:   3'- -ACAGACUAUUCUG---ACCUGG-----UCCaaau -5'
29009 3' -48.3 NC_006146.1 + 69574 0.69 0.989251
Target:  5'- cGUCUGGUGGGGgaagaUGG-CCAGGUc-- -3'
miRNA:   3'- aCAGACUAUUCUg----ACCuGGUCCAaau -5'
29009 3' -48.3 NC_006146.1 + 164328 0.7 0.986056
Target:  5'- cGUCac-UGAGACUGGGCgGGGUg-- -3'
miRNA:   3'- aCAGacuAUUCUGACCUGgUCCAaau -5'
29009 3' -48.3 NC_006146.1 + 61724 0.7 0.982179
Target:  5'- cUGUCUGGgccucAGACUaaGGGCCGGGa--- -3'
miRNA:   3'- -ACAGACUau---UCUGA--CCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 39644 0.7 0.979961
Target:  5'- aGUCcacgcccgUGAUGAGGCUGGAgauCCAGGc--- -3'
miRNA:   3'- aCAG--------ACUAUUCUGACCU---GGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 89966 0.73 0.918696
Target:  5'- uUGUCaGAUGGGccugGCUGGGCCGGGa--- -3'
miRNA:   3'- -ACAGaCUAUUC----UGACCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 127726 0.76 0.836815
Target:  5'- aGgagCUGAUGGGGCUGGGCCGGa---- -3'
miRNA:   3'- aCa--GACUAUUCUGACCUGGUCcaaau -5'
29009 3' -48.3 NC_006146.1 + 114136 0.78 0.73007
Target:  5'- aUGUCgGAUGAGGCUccGGACCAGGc--- -3'
miRNA:   3'- -ACAGaCUAUUCUGA--CCUGGUCCaaau -5'
29009 3' -48.3 NC_006146.1 + 38511 1.08 0.016831
Target:  5'- aUGUCUGAUAAGACUGGACCAGGUUUAg -3'
miRNA:   3'- -ACAGACUAUUCUGACCUGGUCCAAAU- -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.