miRNA display CGI


Results 1 - 20 of 49 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
1658 3' -55.4 NC_001347.2 + 117980 1.1 0.004625
Target:  5'- cCUGGGGACGAAGAACGCGGACGACACg -3'
miRNA:   3'- -GACCCCUGCUUCUUGCGCCUGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 39513 0.81 0.299914
Target:  5'- --aGGGGCGggGGGCGCGG-CGACAUg -3'
miRNA:   3'- gacCCCUGCuuCUUGCGCCuGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 113162 0.76 0.540413
Target:  5'- -cGGGGACGAAGAgggaACGCGcgccccagccgccGGCGugGCg -3'
miRNA:   3'- gaCCCCUGCUUCU----UGCGC-------------CUGCugUG- -5'
1658 3' -55.4 NC_001347.2 + 1972 0.76 0.560771
Target:  5'- -cGGGGACGgcG-GCGgGGACGACGu -3'
miRNA:   3'- gaCCCCUGCuuCuUGCgCCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 177647 0.75 0.58035
Target:  5'- -cGGGGA-GGAGAGCGUaacGGAgGACACa -3'
miRNA:   3'- gaCCCCUgCUUCUUGCG---CCUgCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 182477 0.75 0.590196
Target:  5'- gCUGaGGacgacGACGAAG-ACGCGGACGACGa -3'
miRNA:   3'- -GAC-CC-----CUGCUUCuUGCGCCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 40729 0.75 0.60007
Target:  5'- uUGGGGACGggGAcaguuugcgGCGCGGACc---- -3'
miRNA:   3'- gACCCCUGCuuCU---------UGCGCCUGcugug -5'
1658 3' -55.4 NC_001347.2 + 112783 0.74 0.629798
Target:  5'- -cGGGGGCGccguAGGACGCGGGauaaGACGg -3'
miRNA:   3'- gaCCCCUGCu---UCUUGCGCCUg---CUGUg -5'
1658 3' -55.4 NC_001347.2 + 140575 0.73 0.72784
Target:  5'- -cGGGcggcggugcuGGCGggGGugGUGGACGAgACg -3'
miRNA:   3'- gaCCC----------CUGCuuCUugCGCCUGCUgUG- -5'
1658 3' -55.4 NC_001347.2 + 88360 0.72 0.736405
Target:  5'- gCUGGcGGCGcugccgcGAGAcgACGUGGACGGCACu -3'
miRNA:   3'- -GACCcCUGC-------UUCU--UGCGCCUGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 95147 0.72 0.737353
Target:  5'- uUGGGGGCGGAGGgaacaggagaaGgGCagGGACGACAg -3'
miRNA:   3'- gACCCCUGCUUCU-----------UgCG--CCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 2113 0.72 0.746779
Target:  5'- -cGGGGGCGc-GAuuugcgugccuaACGCGGACGcGCACg -3'
miRNA:   3'- gaCCCCUGCuuCU------------UGCGCCUGC-UGUG- -5'
1658 3' -55.4 NC_001347.2 + 67775 0.72 0.765341
Target:  5'- -aGGGGA-GGAGAgccuacagACG-GGACGACACa -3'
miRNA:   3'- gaCCCCUgCUUCU--------UGCgCCUGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 135070 0.71 0.792329
Target:  5'- gUGGGGACGGugauuguggaGGGGCGUacuGACGACAa -3'
miRNA:   3'- gACCCCUGCU----------UCUUGCGc--CUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 192047 0.71 0.801064
Target:  5'- -cGGcGACGAcGGugGCGGcgACGACACg -3'
miRNA:   3'- gaCCcCUGCUuCUugCGCC--UGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 30954 0.71 0.801064
Target:  5'- cCUGGGGuaACGAgcGGAGCGCgacccauuucaaGGuCGGCGCa -3'
miRNA:   3'- -GACCCC--UGCU--UCUUGCG------------CCuGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 40098 0.71 0.818096
Target:  5'- -cGGGGGCGAGGGACGaCGGcccugGgGAcCGCg -3'
miRNA:   3'- gaCCCCUGCUUCUUGC-GCC-----UgCU-GUG- -5'
1658 3' -55.4 NC_001347.2 + 40672 0.7 0.850197
Target:  5'- -cGGGGACGggGGuuGCGCugGGGcCGGgGCu -3'
miRNA:   3'- gaCCCCUGCuuCU--UGCG--CCU-GCUgUG- -5'
1658 3' -55.4 NC_001347.2 + 157968 0.69 0.885443
Target:  5'- aCUGGGucugcacGACGAGacGCGCGGAgGAgGCu -3'
miRNA:   3'- -GACCC-------CUGCUUcuUGCGCCUgCUgUG- -5'
1658 3' -55.4 NC_001347.2 + 67007 0.69 0.890731
Target:  5'- gCUGGGGggccaacgccggcuGCGGAGAcaGCuGCGGcgguccucGCGACGCu -3'
miRNA:   3'- -GACCCC--------------UGCUUCU--UG-CGCC--------UGCUGUG- -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.