miRNA display CGI


Results 1 - 20 of 30 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
25617 3' -53.9 NC_005337.1 + 29174 0.66 0.928161
Target:  5'- --gUCCagcuccGGAGAcGcGGCGGCGCCCg -3'
miRNA:   3'- aaaAGGgaa---CCUCU-CcUUGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 45722 0.66 0.943351
Target:  5'- ---gCCCgccagcgUGGcgauGAGGAuguACGGCGCCa -3'
miRNA:   3'- aaaaGGGa------ACCu---CUCCU---UGUCGCGGg -5'
25617 3' -53.9 NC_005337.1 + 125277 0.66 0.928161
Target:  5'- ---gCCCa-GGAcAGGAugcaugccuauGCGGCGCCCg -3'
miRNA:   3'- aaaaGGGaaCCUcUCCU-----------UGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 52206 0.66 0.928161
Target:  5'- --gUUCC-UGGu--GGAGCGGCGCuCCa -3'
miRNA:   3'- aaaAGGGaACCucuCCUUGUCGCG-GG- -5'
25617 3' -53.9 NC_005337.1 + 65696 0.66 0.91912
Target:  5'- --gUCCCUguUGGugcacagccgcacgcGGuGGGGC-GCGCCCg -3'
miRNA:   3'- aaaAGGGA--ACC---------------UCuCCUUGuCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 132481 0.66 0.93348
Target:  5'- -gUUCCCgugcGGcggcaGGAGGGACuGGCGgCCg -3'
miRNA:   3'- aaAAGGGaa--CC-----UCUCCUUG-UCGCgGG- -5'
25617 3' -53.9 NC_005337.1 + 115364 0.66 0.937051
Target:  5'- ---gCCCgcggacgUGGuGGGGAGCacgcaccuggaagaGGUGCCCu -3'
miRNA:   3'- aaaaGGGa------ACCuCUCCUUG--------------UCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 106659 0.67 0.881658
Target:  5'- --aUCCCggagcgcgagcggcgGGAgGAGGAGCuGUGCCUc -3'
miRNA:   3'- aaaAGGGaa-------------CCU-CUCCUUGuCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 32268 0.67 0.904333
Target:  5'- -----aCUUGGAGGGGucCAGCGCg- -3'
miRNA:   3'- aaaaggGAACCUCUCCuuGUCGCGgg -5'
25617 3' -53.9 NC_005337.1 + 124211 0.67 0.890211
Target:  5'- ---aCCCUguucuccgaguacUGcGAGuucuGGGGCGGCGCCUg -3'
miRNA:   3'- aaaaGGGA-------------AC-CUCu---CCUUGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 3571 0.67 0.904333
Target:  5'- --cUCCaCgcacgcGGAcGGGGAcuugaGCAGCGCCCc -3'
miRNA:   3'- aaaAGG-Gaa----CCU-CUCCU-----UGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 95793 0.67 0.897745
Target:  5'- ---cUCCUUcGAGAGGAAgGGCcgcacuGCCCg -3'
miRNA:   3'- aaaaGGGAAcCUCUCCUUgUCG------CGGG- -5'
25617 3' -53.9 NC_005337.1 + 84062 0.67 0.897745
Target:  5'- ---gCCCUcGGGGAGGcGCAGgGCg- -3'
miRNA:   3'- aaaaGGGAaCCUCUCCuUGUCgCGgg -5'
25617 3' -53.9 NC_005337.1 + 4306 0.67 0.903686
Target:  5'- --gUCCUgccGGuguucgagaccacAGAGGGGuCGGCGCCCu -3'
miRNA:   3'- aaaAGGGaa-CC-------------UCUCCUU-GUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 121092 0.68 0.87651
Target:  5'- --aUCCCcgUGaaccgcGAGGcGGAcGCGGCGCCCg -3'
miRNA:   3'- aaaAGGGa-AC------CUCU-CCU-UGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 113706 0.68 0.861178
Target:  5'- ---gCCCaUGGAGAcGGAGugcacguaccuCGGCGCCUc -3'
miRNA:   3'- aaaaGGGaACCUCU-CCUU-----------GUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 66537 0.68 0.87651
Target:  5'- -gUUCUCacaGGAGGGGuACcuccuGCGCCCg -3'
miRNA:   3'- aaAAGGGaa-CCUCUCCuUGu----CGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 36441 0.69 0.810109
Target:  5'- --gUCCaggUUGGGGAGGucCAGC-CCCg -3'
miRNA:   3'- aaaAGGg--AACCUCUCCuuGUCGcGGG- -5'
25617 3' -53.9 NC_005337.1 + 86897 0.69 0.8092
Target:  5'- -------aUGGAGAGGAAgcccacgcuguugUAGCGCCCg -3'
miRNA:   3'- aaaagggaACCUCUCCUU-------------GUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 23427 0.69 0.836538
Target:  5'- --aUCCC--GGAGAccgcgguguGGAGCAGCcGCCUg -3'
miRNA:   3'- aaaAGGGaaCCUCU---------CCUUGUCG-CGGG- -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.