miRNA display CGI


Results 1 - 20 of 48 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
11590 3' -61.5 NC_003085.1 + 24478 0.66 0.360834
Target:  5'- gGUGGAGGacauGGCgGCGGUGGCCAcCAu -3'
miRNA:   3'- -CGCUUCUc---CCGgUGCCGCCGGUcGUu -5'
11590 3' -61.5 NC_003085.1 + 36952 0.67 0.305415
Target:  5'- uCGAcaGGcAGGGCCGCGG-GGCCAuguugGCGc -3'
miRNA:   3'- cGCU--UC-UCCCGGUGCCgCCGGU-----CGUu -5'
11590 3' -61.5 NC_003085.1 + 37188 0.67 0.305415
Target:  5'- aCGggGAcGGCCaguuucACGGCG-CCAGCGg -3'
miRNA:   3'- cGCuuCUcCCGG------UGCCGCcGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 18521 0.66 0.315194
Target:  5'- cGCGAAGAggugugcGGGCCgAUugcccagaagcacgaGGUGGCgGGCAAg -3'
miRNA:   3'- -CGCUUCU-------CCCGG-UG---------------CCGCCGgUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 39019 0.66 0.319787
Target:  5'- cGCGGAGGaGGCgACGGCaugcgugGGCgAGCGc -3'
miRNA:   3'- -CGCUUCUcCCGgUGCCG-------CCGgUCGUu -5'
11590 3' -61.5 NC_003085.1 + 28807 0.66 0.327552
Target:  5'- cGCGAGGAGuGCCGCuGGCucaaggaguaGGCCauggggaAGCAAg -3'
miRNA:   3'- -CGCUUCUCcCGGUG-CCG----------CCGG-------UCGUU- -5'
11590 3' -61.5 NC_003085.1 + 43072 0.66 0.343497
Target:  5'- cGUGGAGAcacGGCCGaggaagaaacgacCGGCcGCCAGCAGc -3'
miRNA:   3'- -CGCUUCUc--CCGGU-------------GCCGcCGGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 22694 0.66 0.349209
Target:  5'- aGCGGAGAGGugaGUCugagagagucccugGCGGCGGCUgccgagaAGCAc -3'
miRNA:   3'- -CGCUUCUCC---CGG--------------UGCCGCCGG-------UCGUu -5'
11590 3' -61.5 NC_003085.1 + 20336 0.66 0.352503
Target:  5'- aUGAAcucuGGGCCACGGCGcCuCAGCGc -3'
miRNA:   3'- cGCUUcu--CCCGGUGCCGCcG-GUCGUu -5'
11590 3' -61.5 NC_003085.1 + 2348 0.67 0.298053
Target:  5'- uGCGAcauccgGGAGGcgcagugcgagGCCGCGGCGcGCgAGCu- -3'
miRNA:   3'- -CGCU------UCUCC-----------CGGUGCCGC-CGgUCGuu -5'
11590 3' -61.5 NC_003085.1 + 24356 0.68 0.237933
Target:  5'- gGCGAcgGGAcGGCCuuUGGCGGCCGGg-- -3'
miRNA:   3'- -CGCU--UCUcCCGGu-GCCGCCGGUCguu -5'
11590 3' -61.5 NC_003085.1 + 45339 0.68 0.237933
Target:  5'- aCGAGGucGGCCcccaGGUGGCUGGCAGc -3'
miRNA:   3'- cGCUUCucCCGGug--CCGCCGGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 29531 0.78 0.048293
Target:  5'- cGCGAAcauGGGCCAgUGGCaGGCCAGCAAc -3'
miRNA:   3'- -CGCUUcu-CCCGGU-GCCG-CCGGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 29997 0.75 0.080537
Target:  5'- aUGggGAGcGGcCCugGGCGGCCuuGGCGAc -3'
miRNA:   3'- cGCuuCUC-CC-GGugCCGCCGG--UCGUU- -5'
11590 3' -61.5 NC_003085.1 + 35897 0.75 0.082834
Target:  5'- cGCGGAGucccAGGGCCAUGccaCGGCCAGCc- -3'
miRNA:   3'- -CGCUUC----UCCCGGUGCc--GCCGGUCGuu -5'
11590 3' -61.5 NC_003085.1 + 22584 0.7 0.173897
Target:  5'- gGCGu-GuGGGCCGCGGCGGagaaaaAGCGGg -3'
miRNA:   3'- -CGCuuCuCCCGGUGCCGCCgg----UCGUU- -5'
11590 3' -61.5 NC_003085.1 + 32134 0.7 0.188301
Target:  5'- uGCGAcGGGGGCgGCuGGUGGCgCGGUGGg -3'
miRNA:   3'- -CGCUuCUCCCGgUG-CCGCCG-GUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 32050 0.7 0.193331
Target:  5'- gGCGgcGAGuGGCCugGG-GGaCAGCAAu -3'
miRNA:   3'- -CGCuuCUC-CCGGugCCgCCgGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 454 0.69 0.226032
Target:  5'- gGCGcGGAGGGCCAgcCGGCGcuguugcagguGCCcacgGGCGAg -3'
miRNA:   3'- -CGCuUCUCCCGGU--GCCGC-----------CGG----UCGUU- -5'
11590 3' -61.5 NC_003085.1 + 34441 0.69 0.226032
Target:  5'- uCGGAGccGGCgACGuCGGCCAGCAu -3'
miRNA:   3'- cGCUUCucCCGgUGCcGCCGGUCGUu -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.