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
29932 3' -52.9 NC_006273.1 + 178824 0.66 0.991411
Target:  5'- cGGGcGGcgGCggCGGAGGAGGAGGc -3'
miRNA:   3'- cUCCuUCaaCGgaGUCUCCUUCUCCu -5'
29932 3' -52.9 NC_006273.1 + 119033 0.66 0.991411
Target:  5'- aGGGggGUcgGCgUCGGuguGGAGGAGaGGu -3'
miRNA:   3'- cUCCuuCAa-CGgAGUCu--CCUUCUC-CU- -5'
29932 3' -52.9 NC_006273.1 + 149588 0.66 0.99021
Target:  5'- gGAGGAGGcaagaaaGCUgUAGGGGGAGGGGc -3'
miRNA:   3'- -CUCCUUCaa-----CGGaGUCUCCUUCUCCu -5'
29932 3' -52.9 NC_006273.1 + 171555 0.66 0.99021
Target:  5'- uGGGaGAGGUcacucgcggcgUGCCgcugcCGGuGGAAGGGGAa -3'
miRNA:   3'- -CUC-CUUCA-----------ACGGa----GUCuCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 156193 0.66 0.988019
Target:  5'- cGGGAGGggGaUUCGGAGGAgagcagcacguuaccGGAGGGg -3'
miRNA:   3'- cUCCUUCaaCgGAGUCUCCU---------------UCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 84924 0.66 0.987416
Target:  5'- -uGGAcAGaUGCCUgUAGAGGAGGAGa- -3'
miRNA:   3'- cuCCU-UCaACGGA-GUCUCCUUCUCcu -5'
29932 3' -52.9 NC_006273.1 + 43542 0.66 0.985806
Target:  5'- gGAGGAAGag----CAGaAGGAAGAGGAg -3'
miRNA:   3'- -CUCCUUCaacggaGUC-UCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 6339 0.67 0.984043
Target:  5'- gGAGGAAGagGCC---GAGGAAcccGAGGAa -3'
miRNA:   3'- -CUCCUUCaaCGGaguCUCCUU---CUCCU- -5'
29932 3' -52.9 NC_006273.1 + 66896 0.67 0.975299
Target:  5'- ---uAAGccGCCUCuacgaAGAGGAAGAGGAa -3'
miRNA:   3'- cuccUUCaaCGGAG-----UCUCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 72529 0.68 0.956304
Target:  5'- gGAGGAAGaagaGaCCgCGGAGGAuGAGGAc -3'
miRNA:   3'- -CUCCUUCaa--C-GGaGUCUCCUuCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 101326 0.69 0.948213
Target:  5'- gGAGGAGGgugGa---AGGGGAGGAGGAu -3'
miRNA:   3'- -CUCCUUCaa-CggagUCUCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 116307 0.7 0.912437
Target:  5'- cGAGGAAGagGaggaagaAGAGGAAGAGGAc -3'
miRNA:   3'- -CUCCUUCaaCggag---UCUCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 212296 0.71 0.900064
Target:  5'- gGGGGAGGUucaucgucUGUCUCuAGAGGGAagguGGGGAa -3'
miRNA:   3'- -CUCCUUCA--------ACGGAG-UCUCCUU----CUCCU- -5'
29932 3' -52.9 NC_006273.1 + 117227 0.71 0.893526
Target:  5'- gGAGGAAGagGCCgCAGAgGGGAGAGc- -3'
miRNA:   3'- -CUCCUUCaaCGGaGUCU-CCUUCUCcu -5'
29932 3' -52.9 NC_006273.1 + 51560 0.73 0.807555
Target:  5'- cGGGGggGUggugGCggCGGAGGAcGGAGGGg -3'
miRNA:   3'- -CUCCuuCAa---CGgaGUCUCCU-UCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 63083 0.74 0.761499
Target:  5'- gGAGGAGGgUGCUcaGGAGGAgcgGGAGGAc -3'
miRNA:   3'- -CUCCUUCaACGGagUCUCCU---UCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 161736 0.77 0.590184
Target:  5'- cGAGGGAGacGCUgaugaAGAGGAGGAGGAg -3'
miRNA:   3'- -CUCCUUCaaCGGag---UCUCCUUCUCCU- -5'
29932 3' -52.9 NC_006273.1 + 63149 1.1 0.007325
Target:  5'- aGAGGAAGUUGCCUCAGAGGAAGAGGAg -3'
miRNA:   3'- -CUCCUUCAACGGAGUCUCCUUCUCCU- -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.