miRNA display CGI


Results 1 - 20 of 22 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
28441 5' -47.2 NC_005946.1 + 92833 1.12 0.00949
Target:  5'- gCGAGAAUAGACAACACAAGACGCGACg -3'
miRNA:   3'- -GCUCUUAUCUGUUGUGUUCUGCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 36426 0.7 0.977681
Target:  5'- gGAGGAgGGACGgaagggGCACGgagGGACGCGGa -3'
miRNA:   3'- gCUCUUaUCUGU------UGUGU---UCUGCGCUg -5'
28441 5' -47.2 NC_005946.1 + 82341 0.7 0.984446
Target:  5'- aGAGGAUGGACGugucaGCGGGA-GCGAg -3'
miRNA:   3'- gCUCUUAUCUGUug---UGUUCUgCGCUg -5'
28441 5' -47.2 NC_005946.1 + 79332 0.69 0.985772
Target:  5'- uCGAGGGgucagagucggcccUGGAUaaaGACGC-GGACGCGGCg -3'
miRNA:   3'- -GCUCUU--------------AUCUG---UUGUGuUCUGCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 25780 0.69 0.988003
Target:  5'- gGAGGugGUGGACGACG-AGGACGaCGAg -3'
miRNA:   3'- gCUCU--UAUCUGUUGUgUUCUGC-GCUg -5'
28441 5' -47.2 NC_005946.1 + 69045 0.68 0.994172
Target:  5'- uGAGGAUGGugGGCAUGAcucccuuuuuuGugGCGGg -3'
miRNA:   3'- gCUCUUAUCugUUGUGUU-----------CugCGCUg -5'
28441 5' -47.2 NC_005946.1 + 21373 0.68 0.995024
Target:  5'- aGAGGgagGUGGAgAGCACcaGGGACGCcgugGACg -3'
miRNA:   3'- gCUCU---UAUCUgUUGUG--UUCUGCG----CUG- -5'
28441 5' -47.2 NC_005946.1 + 61405 0.68 0.995772
Target:  5'- aGAGggUGGACcACGuCAAGAgGaUGGCc -3'
miRNA:   3'- gCUCuuAUCUGuUGU-GUUCUgC-GCUG- -5'
28441 5' -47.2 NC_005946.1 + 104283 0.68 0.995772
Target:  5'- uGAGAAgAGA-AACACAGauACGCGACg -3'
miRNA:   3'- gCUCUUaUCUgUUGUGUUc-UGCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 82434 0.67 0.996993
Target:  5'- aGAGGAUGGACGugucaGCGGGAgGCa-- -3'
miRNA:   3'- gCUCUUAUCUGUug---UGUUCUgCGcug -5'
28441 5' -47.2 NC_005946.1 + 92024 0.67 0.997786
Target:  5'- aCGAGccUGGACAucuuuucggcguggACGCAcagcuuuacgugAGGCGUGACg -3'
miRNA:   3'- -GCUCuuAUCUGU--------------UGUGU------------UCUGCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 95107 0.67 0.997906
Target:  5'- uGAGGAUcgcucccaccagGGACAACACccAGGCGgcaGACg -3'
miRNA:   3'- gCUCUUA------------UCUGUUGUGu-UCUGCg--CUG- -5'
28441 5' -47.2 NC_005946.1 + 24500 0.67 0.997906
Target:  5'- cCGGGAaagauGUAGGC-GCACGccGugGCGGCc -3'
miRNA:   3'- -GCUCU-----UAUCUGuUGUGUu-CugCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 34410 0.67 0.997906
Target:  5'- gGAGcacAUGGACAcCACGGGaACGUGAg -3'
miRNA:   3'- gCUCu--UAUCUGUuGUGUUC-UGCGCUg -5'
28441 5' -47.2 NC_005946.1 + 44410 0.67 0.997906
Target:  5'- gGAGGAcAGGCAGCACAcuGCgguucugucuGCGGCc -3'
miRNA:   3'- gCUCUUaUCUGUUGUGUucUG----------CGCUG- -5'
28441 5' -47.2 NC_005946.1 + 58401 0.67 0.998268
Target:  5'- ----cGUAGACGGCGC-AGACGUGGu -3'
miRNA:   3'- gcucuUAUCUGUUGUGuUCUGCGCUg -5'
28441 5' -47.2 NC_005946.1 + 88304 0.66 0.998575
Target:  5'- gCGAGGGgcacuuUAGGgAGCACGAugacGACGCGGu -3'
miRNA:   3'- -GCUCUU------AUCUgUUGUGUU----CUGCGCUg -5'
28441 5' -47.2 NC_005946.1 + 1991 0.66 0.998575
Target:  5'- aCGGGAgcgugaccAUGGACGACGuCAAGAacacuauaaacUGUGACu -3'
miRNA:   3'- -GCUCU--------UAUCUGUUGU-GUUCU-----------GCGCUG- -5'
28441 5' -47.2 NC_005946.1 + 3878 0.66 0.998835
Target:  5'- aUGGGggUAaGCAACACGAGcauguCGUGGa -3'
miRNA:   3'- -GCUCuuAUcUGUUGUGUUCu----GCGCUg -5'
28441 5' -47.2 NC_005946.1 + 71858 0.66 0.999053
Target:  5'- aGAGAA-AGGCGGC-CAAGAggccCGCGGg -3'
miRNA:   3'- gCUCUUaUCUGUUGuGUUCU----GCGCUg -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.