miRNA display CGI


Results 1 - 17 of 17 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
18031 3' -54.1 NC_004665.1 + 31318 0.66 0.67589
Target:  5'- -gGAGGAcCGaGGU--ACGCaCAGCAGCa -3'
miRNA:   3'- ggUUCCUuGC-CCGucUGCG-GUUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 8701 0.66 0.67589
Target:  5'- aCCGcc-AGCGaGGCAGAUGCC--CAGCg -3'
miRNA:   3'- -GGUuccUUGC-CCGUCUGCGGuuGUCG- -5'
18031 3' -54.1 NC_004665.1 + 16926 0.66 0.664601
Target:  5'- cCCAccGAGUGGGCgaaGGACGCUAugAGa -3'
miRNA:   3'- -GGUucCUUGCCCG---UCUGCGGUugUCg -5'
18031 3' -54.1 NC_004665.1 + 23802 0.67 0.641939
Target:  5'- aCCGAGGAcau--CGGACGCUuGCAGCu -3'
miRNA:   3'- -GGUUCCUugcccGUCUGCGGuUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 13679 0.67 0.630588
Target:  5'- uCCAAG---UGGGCAccGAUGCgAGCGGCc -3'
miRNA:   3'- -GGUUCcuuGCCCGU--CUGCGgUUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 22590 0.67 0.630588
Target:  5'- aCCc--GAACGGGCAGAC-UCAcCAGUg -3'
miRNA:   3'- -GGuucCUUGCCCGUCUGcGGUuGUCG- -5'
18031 3' -54.1 NC_004665.1 + 8812 0.67 0.618104
Target:  5'- aCCAacgaucuGGGcuuGCGGGUAcuGACGCuuguuggcgauCAGCAGCa -3'
miRNA:   3'- -GGU-------UCCu--UGCCCGU--CUGCG-----------GUUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 23422 0.67 0.596586
Target:  5'- gCGAGGAcACGGGUGGuagccgcauCGCCGAacucCAGUg -3'
miRNA:   3'- gGUUCCU-UGCCCGUCu--------GCGGUU----GUCG- -5'
18031 3' -54.1 NC_004665.1 + 23118 0.68 0.574062
Target:  5'- cCCAuAGGGACGGGCAccaucacucACGUCGAacuCAGUg -3'
miRNA:   3'- -GGU-UCCUUGCCCGUc--------UGCGGUU---GUCG- -5'
18031 3' -54.1 NC_004665.1 + 33140 0.68 0.562871
Target:  5'- aCAAGGGACuGGUGGugGgauuGCAGCa -3'
miRNA:   3'- gGUUCCUUGcCCGUCugCggu-UGUCG- -5'
18031 3' -54.1 NC_004665.1 + 29792 0.69 0.50689
Target:  5'- cCCGAGccuuGAcaguagcGCGGGaagcguaGGACGCCAGcCAGCu -3'
miRNA:   3'- -GGUUC----CU-------UGCCCg------UCUGCGGUU-GUCG- -5'
18031 3' -54.1 NC_004665.1 + 4126 0.69 0.489806
Target:  5'- gUCGAGGGACaGGUGGAugacccguccuucuuCGCCAagguauugguagaGCAGCa -3'
miRNA:   3'- -GGUUCCUUGcCCGUCU---------------GCGGU-------------UGUCG- -5'
18031 3' -54.1 NC_004665.1 + 36836 0.69 0.486632
Target:  5'- aCCGAGaGA--GGGCaAGGCGCUuuaagacgAGCAGCa -3'
miRNA:   3'- -GGUUC-CUugCCCG-UCUGCGG--------UUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 9056 0.69 0.476125
Target:  5'- aCAGGucACGGGCAca-GCCAcCAGCg -3'
miRNA:   3'- gGUUCcuUGCCCGUcugCGGUuGUCG- -5'
18031 3' -54.1 NC_004665.1 + 11864 0.7 0.435283
Target:  5'- cUCAAGucGCuGGGCuacaccuacGugGCCAACGGCa -3'
miRNA:   3'- -GGUUCcuUG-CCCGu--------CugCGGUUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 36163 0.72 0.342762
Target:  5'- aCAAGGGaacguaGCGGugaccaCAGGgGCCAGCAGCu -3'
miRNA:   3'- gGUUCCU------UGCCc-----GUCUgCGGUUGUCG- -5'
18031 3' -54.1 NC_004665.1 + 35081 1.14 0.000358
Target:  5'- uCCAAGGAACGGGCAGACGCCAACAGCg -3'
miRNA:   3'- -GGUUCCUUGCCCGUCUGCGGUUGUCG- -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.