miRNA display CGI


Results 1 - 20 of 21 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
1610 3' -55.1 NC_001347.2 + 71725 0.66 0.956579
Target:  5'- gCGUGuGCCCu--GCCUCacgGCUGgUCCGu -3'
miRNA:   3'- -GUAC-CGGGuguUGGAGa--CGAUgAGGU- -5'
1610 3' -55.1 NC_001347.2 + 38684 0.66 0.952706
Target:  5'- --cGGCCCACcGCCg--GCgcaGCUCCc -3'
miRNA:   3'- guaCCGGGUGuUGGagaCGa--UGAGGu -5'
1610 3' -55.1 NC_001347.2 + 193843 0.66 0.948608
Target:  5'- --gGGCUCuCGGCCUCgaUGCUGCgCCGc -3'
miRNA:   3'- guaCCGGGuGUUGGAG--ACGAUGaGGU- -5'
1610 3' -55.1 NC_001347.2 + 199538 0.67 0.94428
Target:  5'- -cUGGCgCCACGggacugguACUUCUGCUACUg-- -3'
miRNA:   3'- guACCG-GGUGU--------UGGAGACGAUGAggu -5'
1610 3' -55.1 NC_001347.2 + 194023 0.67 0.939721
Target:  5'- -cUGGCgCGCGACCUCaGggGCUUCGu -3'
miRNA:   3'- guACCGgGUGUUGGAGaCgaUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 79366 0.67 0.938307
Target:  5'- cCAUGGCcgaguaCCGCAgcgaguugcugugcACCUCggccuuucuagGCUACUCCGc -3'
miRNA:   3'- -GUACCG------GGUGU--------------UGGAGa----------CGAUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 140961 0.67 0.934928
Target:  5'- cCGUGGCCUucCAGCCgCUGCUAg-CCu -3'
miRNA:   3'- -GUACCGGGu-GUUGGaGACGAUgaGGu -5'
1610 3' -55.1 NC_001347.2 + 169159 0.68 0.919138
Target:  5'- --gGGCCCGCA---UCUGCUGCaCCGc -3'
miRNA:   3'- guaCCGGGUGUuggAGACGAUGaGGU- -5'
1610 3' -55.1 NC_001347.2 + 109684 0.68 0.901239
Target:  5'- -cUGGCCCGCAACC--UGgUGC-CCAu -3'
miRNA:   3'- guACCGGGUGUUGGagACgAUGaGGU- -5'
1610 3' -55.1 NC_001347.2 + 2406 0.68 0.89481
Target:  5'- --aGGCCgCGCGGCggCUGCUGC-CCGa -3'
miRNA:   3'- guaCCGG-GUGUUGgaGACGAUGaGGU- -5'
1610 3' -55.1 NC_001347.2 + 125371 0.68 0.89481
Target:  5'- --aGGCCCAUAACgCgCUGCacCUCCAc -3'
miRNA:   3'- guaCCGGGUGUUG-GaGACGauGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 168738 0.69 0.859359
Target:  5'- cCGUGGCCCgu-GCCcgCaGCUGCUCUAu -3'
miRNA:   3'- -GUACCGGGuguUGGa-GaCGAUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 90337 0.69 0.85164
Target:  5'- --cGGCCCGCuaucGCCaccgCUGCUACugcuaUCCAa -3'
miRNA:   3'- guaCCGGGUGu---UGGa---GACGAUG-----AGGU- -5'
1610 3' -55.1 NC_001347.2 + 127199 0.7 0.846914
Target:  5'- cCGUGGCCUccgaaaccuggcaucGCAGCCUCUuuccgcgugacCUGCUCCGu -3'
miRNA:   3'- -GUACCGGG---------------UGUUGGAGAc----------GAUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 138973 0.7 0.801457
Target:  5'- --gGGCCCGCGGCUuuUCU-CUACUUCAg -3'
miRNA:   3'- guaCCGGGUGUUGG--AGAcGAUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 113038 0.73 0.666572
Target:  5'- aCAUGGa-CGCcGCCUCUGCcgGCUCCGa -3'
miRNA:   3'- -GUACCggGUGuUGGAGACGa-UGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 104971 0.74 0.636145
Target:  5'- gGUGGCgCCGgGGCUUUUGCUACgUCCGa -3'
miRNA:   3'- gUACCG-GGUgUUGGAGACGAUG-AGGU- -5'
1610 3' -55.1 NC_001347.2 + 201542 0.75 0.575406
Target:  5'- -cUGGCCaGCuACCUCUGCUGCcCCGa -3'
miRNA:   3'- guACCGGgUGuUGGAGACGAUGaGGU- -5'
1610 3' -55.1 NC_001347.2 + 136048 0.76 0.525808
Target:  5'- --cGGCCCACGGCCccggaUGgUGCUCCAg -3'
miRNA:   3'- guaCCGGGUGUUGGag---ACgAUGAGGU- -5'
1610 3' -55.1 NC_001347.2 + 114007 0.76 0.496825
Target:  5'- --cGGCgCCACAGCCUgcgaCUGCUGCUCg- -3'
miRNA:   3'- guaCCG-GGUGUUGGA----GACGAUGAGgu -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.