miRNA display CGI


Results 1 - 17 of 17 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
28501 3' -60.7 NC_005946.1 + 7214 0.66 0.604778
Target:  5'- uGAUGGCCagaaCGauGAGGGCguAcuuuuGGGCGGu -3'
miRNA:   3'- -CUACCGGg---GU--CUCCCGguUu----CCCGCU- -5'
28501 3' -60.7 NC_005946.1 + 34016 0.66 0.594541
Target:  5'- cGggGGCCCUugccaGGAGGG-UAGAGGGaaaGAg -3'
miRNA:   3'- -CuaCCGGGG-----UCUCCCgGUUUCCCg--CU- -5'
28501 3' -60.7 NC_005946.1 + 53534 0.66 0.581276
Target:  5'- --cGGCCagagAGAGGGCCGgcggggacauagaaGAGGGCc- -3'
miRNA:   3'- cuaCCGGgg--UCUCCCGGU--------------UUCCCGcu -5'
28501 3' -60.7 NC_005946.1 + 96184 0.66 0.574158
Target:  5'- --gGGCCCUGGAcaugacGGCCAuccuguugucGGGGGUGAg -3'
miRNA:   3'- cuaCCGGGGUCUc-----CCGGU----------UUCCCGCU- -5'
28501 3' -60.7 NC_005946.1 + 11204 0.66 0.574158
Target:  5'- cGggGGCCCuCAGAGGaggauuggcGUCGAGGaGGUGGu -3'
miRNA:   3'- -CuaCCGGG-GUCUCC---------CGGUUUC-CCGCU- -5'
28501 3' -60.7 NC_005946.1 + 29355 0.66 0.553941
Target:  5'- --gGGCCUCAG-GGGC-AGAGGG-GAa -3'
miRNA:   3'- cuaCCGGGGUCuCCCGgUUUCCCgCU- -5'
28501 3' -60.7 NC_005946.1 + 33759 0.66 0.552936
Target:  5'- aGAUGGCCCaCGGGGcccugccggugguGGCCAucauGAcGGCGGg -3'
miRNA:   3'- -CUACCGGG-GUCUC-------------CCGGU----UUcCCGCU- -5'
28501 3' -60.7 NC_005946.1 + 29256 0.67 0.494768
Target:  5'- --gGGgCCCAG-GGGCCcAGGGGagcaGAg -3'
miRNA:   3'- cuaCCgGGGUCuCCCGGuUUCCCg---CU- -5'
28501 3' -60.7 NC_005946.1 + 97042 0.67 0.494768
Target:  5'- --gGGCUCCAGuuuGGGCCAcgaaaacGGaGGCGGc -3'
miRNA:   3'- cuaCCGGGGUCu--CCCGGUu------UC-CCGCU- -5'
28501 3' -60.7 NC_005946.1 + 91480 0.68 0.466266
Target:  5'- uGUGG-CCgAGAGGGCCAaggaaAAGGGUc- -3'
miRNA:   3'- cUACCgGGgUCUCCCGGU-----UUCCCGcu -5'
28501 3' -60.7 NC_005946.1 + 33353 0.68 0.456955
Target:  5'- -cUGGaCCCAGAGGGgaUCAGGGGGUc- -3'
miRNA:   3'- cuACCgGGGUCUCCC--GGUUUCCCGcu -5'
28501 3' -60.7 NC_005946.1 + 82852 0.69 0.429639
Target:  5'- --aGGUCCCGGAGGuccgcgagaccCCAGAGGGCc- -3'
miRNA:   3'- cuaCCGGGGUCUCCc----------GGUUUCCCGcu -5'
28501 3' -60.7 NC_005946.1 + 92008 0.7 0.35382
Target:  5'- -cUGG-CCgAGAGGGUCAggggGAGGGUGAg -3'
miRNA:   3'- cuACCgGGgUCUCCCGGU----UUCCCGCU- -5'
28501 3' -60.7 NC_005946.1 + 29567 0.7 0.349114
Target:  5'- --gGGCCCggaCGGAgacgugggagguaugGGGCCAGAGGGCc- -3'
miRNA:   3'- cuaCCGGG---GUCU---------------CCCGGUUUCCCGcu -5'
28501 3' -60.7 NC_005946.1 + 85043 0.71 0.315974
Target:  5'- cGGUGGCCCU-GAGGGC-AAAGGcuGCGGc -3'
miRNA:   3'- -CUACCGGGGuCUCCCGgUUUCC--CGCU- -5'
28501 3' -60.7 NC_005946.1 + 49848 0.72 0.268249
Target:  5'- gGGUGGCCCUgucuacguucaGGAGGGaaGAGGGGuCGGa -3'
miRNA:   3'- -CUACCGGGG-----------UCUCCCggUUUCCC-GCU- -5'
28501 3' -60.7 NC_005946.1 + 97185 0.73 0.243097
Target:  5'- uGUGGUCCCcgugAGAGGGCCuccacucGGAGGGCc- -3'
miRNA:   3'- cUACCGGGG----UCUCCCGG-------UUUCCCGcu -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.