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
16299 3' -52.3 NC_004084.1 + 53485 0.66 0.869651
Target:  5'- -cGUCCUCGAGCGgcuggagccCCUCGaCGUAguGc -3'
miRNA:   3'- uaUAGGAGCUUGC---------GGAGUcGCAUguC- -5'
16299 3' -52.3 NC_004084.1 + 3932 0.66 0.84406
Target:  5'- -cGUCCUCGAACcgGCUUUugaaGUGCAGg -3'
miRNA:   3'- uaUAGGAGCUUG--CGGAGucg-CAUGUC- -5'
16299 3' -52.3 NC_004084.1 + 9930 0.66 0.835049
Target:  5'- ---gCCUCGAcgaGCCUCAGCGa---- -3'
miRNA:   3'- uauaGGAGCUug-CGGAGUCGCauguc -5'
16299 3' -52.3 NC_004084.1 + 4510 0.66 0.835049
Target:  5'- gAUGUCga-GAuCGCCUCGcagcGCGUGCAGg -3'
miRNA:   3'- -UAUAGgagCUuGCGGAGU----CGCAUGUC- -5'
16299 3' -52.3 NC_004084.1 + 43405 0.67 0.816364
Target:  5'- -gGUUCUCGAA-GCCccCAGCGaACAGa -3'
miRNA:   3'- uaUAGGAGCUUgCGGa-GUCGCaUGUC- -5'
16299 3' -52.3 NC_004084.1 + 21443 0.67 0.795869
Target:  5'- gAUGUCCgCGAGCGCCUCGaacggacGCuGaACAGu -3'
miRNA:   3'- -UAUAGGaGCUUGCGGAGU-------CG-CaUGUC- -5'
16299 3' -52.3 NC_004084.1 + 49209 0.67 0.786836
Target:  5'- ---aCC-CGAACGCCUUcGCGUcgaACGGg -3'
miRNA:   3'- uauaGGaGCUUGCGGAGuCGCA---UGUC- -5'
16299 3' -52.3 NC_004084.1 + 138 0.68 0.776639
Target:  5'- -cGUCCgcaGAGCGCCcgCAGCcaggGCAGg -3'
miRNA:   3'- uaUAGGag-CUUGCGGa-GUCGca--UGUC- -5'
16299 3' -52.3 NC_004084.1 + 2217 0.68 0.766285
Target:  5'- gAUGUCCUCGccgcuCGCUUCGGCcagcGCGGa -3'
miRNA:   3'- -UAUAGGAGCuu---GCGGAGUCGca--UGUC- -5'
16299 3' -52.3 NC_004084.1 + 36258 0.68 0.745153
Target:  5'- -cGUCCUCGAguGCGCCgaGGCGcucGCGGu -3'
miRNA:   3'- uaUAGGAGCU--UGCGGagUCGCa--UGUC- -5'
16299 3' -52.3 NC_004084.1 + 2744 0.68 0.740865
Target:  5'- uUGUCCgacucgcucucggCGAugGCCUUcgucuccuGCGUGCAGa -3'
miRNA:   3'- uAUAGGa------------GCUugCGGAGu-------CGCAUGUC- -5'
16299 3' -52.3 NC_004084.1 + 32227 0.68 0.7344
Target:  5'- --cUCCUCGAcgACGCCgaCGGuCGUugGGa -3'
miRNA:   3'- uauAGGAGCU--UGCGGa-GUC-GCAugUC- -5'
16299 3' -52.3 NC_004084.1 + 44544 0.69 0.723539
Target:  5'- -gGUCCUCGGcugcuggugccaGCGCCUCAaCGaugACGGg -3'
miRNA:   3'- uaUAGGAGCU------------UGCGGAGUcGCa--UGUC- -5'
16299 3' -52.3 NC_004084.1 + 15256 0.69 0.712582
Target:  5'- --cUCCgUGAACGCgaaCUCAGCGUACu- -3'
miRNA:   3'- uauAGGaGCUUGCG---GAGUCGCAUGuc -5'
16299 3' -52.3 NC_004084.1 + 7008 0.69 0.679261
Target:  5'- ---cCCUCGAAgGCCUCgacGGCGU-CGGc -3'
miRNA:   3'- uauaGGAGCUUgCGGAG---UCGCAuGUC- -5'
16299 3' -52.3 NC_004084.1 + 14563 0.7 0.622932
Target:  5'- -gAUCC-CGAACuCCUCAGCGgcgucGCGGa -3'
miRNA:   3'- uaUAGGaGCUUGcGGAGUCGCa----UGUC- -5'
16299 3' -52.3 NC_004084.1 + 47013 0.7 0.611649
Target:  5'- --cUCCUCGuGGCG-CUCAGCGUGguGg -3'
miRNA:   3'- uauAGGAGC-UUGCgGAGUCGCAUguC- -5'
16299 3' -52.3 NC_004084.1 + 48695 0.71 0.600385
Target:  5'- -gAUCCUCGAAgcCGCCggcaUCGGCGU-CGGc -3'
miRNA:   3'- uaUAGGAGCUU--GCGG----AGUCGCAuGUC- -5'
16299 3' -52.3 NC_004084.1 + 22154 0.71 0.555705
Target:  5'- ---aCCgCGAGCGCCUCGGCGcACu- -3'
miRNA:   3'- uauaGGaGCUUGCGGAGUCGCaUGuc -5'
16299 3' -52.3 NC_004084.1 + 20037 0.72 0.519588
Target:  5'- -gGUCCUCGGuCGCCUucccgcgcucgaucCGGCGUagGCAGa -3'
miRNA:   3'- uaUAGGAGCUuGCGGA--------------GUCGCA--UGUC- -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.