miRNA display CGI


Results 1 - 20 of 23 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
18422 3' -56.5 NC_004681.1 + 74948 0.66 0.72337
Target:  5'- aGAGUccguugUGGACGAGUAGCCguuguUCUCCAg -3'
miRNA:   3'- cUUCG------ACUUGCUCGUCGGgu---AGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 16565 0.66 0.723369
Target:  5'- -cAGCUugccGACGAGCgcuacaAGCCCccggcGUCCCCGg -3'
miRNA:   3'- cuUCGAc---UUGCUCG------UCGGG-----UAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 18532 0.66 0.702252
Target:  5'- --uGCUGAACGAcucaccgcugGCGGaCCCGUCCa-- -3'
miRNA:   3'- cuuCGACUUGCU----------CGUC-GGGUAGGggu -5'
18422 3' -56.5 NC_004681.1 + 62356 0.66 0.670106
Target:  5'- -cGGCUucguggaucgGAucgcAUGAGCgAGCCCAUUCCCGg -3'
miRNA:   3'- cuUCGA----------CU----UGCUCG-UCGGGUAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 49153 0.67 0.659307
Target:  5'- --cGCUGAGCuuuGCgAGCCCcUCCCUg -3'
miRNA:   3'- cuuCGACUUGcu-CG-UCGGGuAGGGGu -5'
18422 3' -56.5 NC_004681.1 + 38202 0.67 0.626803
Target:  5'- cGAGGUugugGAugGGGCGGCCgaagaCGUCCCgCGg -3'
miRNA:   3'- -CUUCGa---CUugCUCGUCGG-----GUAGGG-GU- -5'
18422 3' -56.5 NC_004681.1 + 57766 0.67 0.615965
Target:  5'- cGAGcGCUGcGCGGGuCAGUCCAaCCCUg -3'
miRNA:   3'- -CUU-CGACuUGCUC-GUCGGGUaGGGGu -5'
18422 3' -56.5 NC_004681.1 + 13831 0.67 0.605141
Target:  5'- gGggGaCUGGACGAuaAGUCCGUCaCCAa -3'
miRNA:   3'- -CuuC-GACUUGCUcgUCGGGUAGgGGU- -5'
18422 3' -56.5 NC_004681.1 + 23376 0.68 0.572837
Target:  5'- aGggGCUGGAUGAGCGucugaacgacGCCacgccaaAUCUCCGc -3'
miRNA:   3'- -CuuCGACUUGCUCGU----------CGGg------UAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 8630 0.68 0.550462
Target:  5'- cGAGCUGAgccucGCGGaccugauuuccucGCGGCCCGUCaCCAg -3'
miRNA:   3'- cUUCGACU-----UGCU-------------CGUCGGGUAGgGGU- -5'
18422 3' -56.5 NC_004681.1 + 16330 0.69 0.530455
Target:  5'- gGAAGC----CGAGCAGgCCAUCUCCGc -3'
miRNA:   3'- -CUUCGacuuGCUCGUCgGGUAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 34726 0.69 0.520032
Target:  5'- -cGGCUgGAACGuGUcacccaagGGCCgCAUCCCCAu -3'
miRNA:   3'- cuUCGA-CUUGCuCG--------UCGG-GUAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 28597 0.69 0.520032
Target:  5'- gGggGUgcccgGggUGAGUgugAGCCCAgCCCCGg -3'
miRNA:   3'- -CuuCGa----CuuGCUCG---UCGGGUaGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 37056 0.69 0.509689
Target:  5'- --cGgUGAugGGGUGGCUCAUCCCa- -3'
miRNA:   3'- cuuCgACUugCUCGUCGGGUAGGGgu -5'
18422 3' -56.5 NC_004681.1 + 10855 0.69 0.499433
Target:  5'- uGAGgUGAugGAGCuuGCCCuugUCCCAg -3'
miRNA:   3'- cUUCgACUugCUCGu-CGGGua-GGGGU- -5'
18422 3' -56.5 NC_004681.1 + 12241 0.69 0.496374
Target:  5'- uGGGCUGAGuCGGGUGGCCCGgugcuguggccgacUCCCgAg -3'
miRNA:   3'- cUUCGACUU-GCUCGUCGGGU--------------AGGGgU- -5'
18422 3' -56.5 NC_004681.1 + 31509 0.72 0.359009
Target:  5'- gGGAGCUGcaccauCGGGCAGUCCGUcgcgcgCCCCGu -3'
miRNA:   3'- -CUUCGACuu----GCUCGUCGGGUA------GGGGU- -5'
18422 3' -56.5 NC_004681.1 + 36826 0.74 0.284759
Target:  5'- uGggGUccugaUGAACGAGCAGaggaugguaaccaucUCCGUCCCCGa -3'
miRNA:   3'- -CuuCG-----ACUUGCUCGUC---------------GGGUAGGGGU- -5'
18422 3' -56.5 NC_004681.1 + 51699 0.74 0.255001
Target:  5'- cGAGCUGGGCGaAGCcgAGCCCGUUgCCGg -3'
miRNA:   3'- cUUCGACUUGC-UCG--UCGGGUAGgGGU- -5'
18422 3' -56.5 NC_004681.1 + 25170 0.76 0.212974
Target:  5'- gGAGGCUGAGCGAGguGCCg--CCCg- -3'
miRNA:   3'- -CUUCGACUUGCUCguCGGguaGGGgu -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.