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 + 70572 1.1 0.002701
Target:  5'- gUUUUCCCUUGGAGAGGAACAGCGCCCg -3'
miRNA:   3'- -AAAAGGGAACCUCUCCUUGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 10602 0.73 0.585965
Target:  5'- --gUCCCgccgcgGGGGAGcGGCGGCGCCa -3'
miRNA:   3'- aaaAGGGaa----CCUCUCcUUGUCGCGGg -5'
25617 3' -53.9 NC_005337.1 + 2248 0.72 0.647273
Target:  5'- ----aCCUUGGAGAGGAACucgcggaaggccGUGUCCg -3'
miRNA:   3'- aaaagGGAACCUCUCCUUGu-----------CGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 120338 0.71 0.701908
Target:  5'- ---gCCCaUGGAGcacgacGGGGCuGCGCCCg -3'
miRNA:   3'- aaaaGGGaACCUCu-----CCUUGuCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 128729 0.71 0.712262
Target:  5'- -gUUCCCcgaugUGGAGAGGuGGC-GUGCCUg -3'
miRNA:   3'- aaAAGGGa----ACCUCUCC-UUGuCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 119702 0.71 0.732741
Target:  5'- -cUUCCCggGGAGAcGGAGCGGCaCUa -3'
miRNA:   3'- aaAAGGGaaCCUCU-CCUUGUCGcGGg -5'
25617 3' -53.9 NC_005337.1 + 82202 0.7 0.752847
Target:  5'- --aUCCgcUGGGGAGGuACAGCacgcgGCCCg -3'
miRNA:   3'- aaaAGGgaACCUCUCCuUGUCG-----CGGG- -5'
25617 3' -53.9 NC_005337.1 + 90829 0.69 0.788781
Target:  5'- --cUCCCggGGGGAGaucagguugaugcuGGACAGCGUCUc -3'
miRNA:   3'- aaaAGGGaaCCUCUC--------------CUUGUCGCGGG- -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 + 13757 0.69 0.810109
Target:  5'- --gUCCCgcGGuccauGGuGCAGCGCCCg -3'
miRNA:   3'- aaaAGGGaaCCucu--CCuUGUCGCGGG- -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 + 41199 0.69 0.810109
Target:  5'- --cUCCg-UGGAGAGGu-CGGCGCUUa -3'
miRNA:   3'- aaaAGGgaACCUCUCCuuGUCGCGGG- -5'
25617 3' -53.9 NC_005337.1 + 23427 0.69 0.836538
Target:  5'- --aUCCC--GGAGAccgcgguguGGAGCAGCcGCCUg -3'
miRNA:   3'- aaaAGGGaaCCUCU---------CCUUGUCG-CGGG- -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 + 121092 0.68 0.87651
Target:  5'- --aUCCCcgUGaaccgcGAGGcGGAcGCGGCGCCCg -3'
miRNA:   3'- aaaAGGGa-AC------CUCU-CCU-UGUCGCGGG- -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 + 124211 0.67 0.890211
Target:  5'- ---aCCCUguucuccgaguacUGcGAGuucuGGGGCGGCGCCUg -3'
miRNA:   3'- aaaaGGGA-------------AC-CUCu---CCUUGUCGCGGG- -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 + 95793 0.67 0.897745
Target:  5'- ---cUCCUUcGAGAGGAAgGGCcgcacuGCCCg -3'
miRNA:   3'- aaaaGGGAAcCUCUCCUUgUCG------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.