miRNA display CGI


Results 1 - 12 of 12 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
13587 5' -54.9 NC_003444.1 + 6382 0.66 0.666356
Target:  5'- -uGCGugAuGCCCGUC-GGCUGgugaUGCg -3'
miRNA:   3'- ggUGCugUcUGGGCAGuCCGAUg---ACG- -5'
13587 5' -54.9 NC_003444.1 + 5103 0.66 0.655145
Target:  5'- gCCGCGGCAGucuguguuguGCCgGUCAcugaUGCUGCc -3'
miRNA:   3'- -GGUGCUGUC----------UGGgCAGUccg-AUGACG- -5'
13587 5' -54.9 NC_003444.1 + 13488 0.66 0.651777
Target:  5'- aCACGGCAGGCUgGUgAuuggugguauuGGCUcaacgcgggcacauACUGCg -3'
miRNA:   3'- gGUGCUGUCUGGgCAgU-----------CCGA--------------UGACG- -5'
13587 5' -54.9 NC_003444.1 + 21916 0.66 0.643913
Target:  5'- aCACGACAaGCCUG-CAuugcGGCUcuucagucuccGCUGCa -3'
miRNA:   3'- gGUGCUGUcUGGGCaGU----CCGA-----------UGACG- -5'
13587 5' -54.9 NC_003444.1 + 7739 0.66 0.632668
Target:  5'- gCCA-GACcGACCCGUUuGGUgaGCUGUa -3'
miRNA:   3'- -GGUgCUGuCUGGGCAGuCCGa-UGACG- -5'
13587 5' -54.9 NC_003444.1 + 8457 0.69 0.489856
Target:  5'- cCCACG-CAGACCgGUgAGcugguggguauGCUGcCUGCg -3'
miRNA:   3'- -GGUGCuGUCUGGgCAgUC-----------CGAU-GACG- -5'
13587 5' -54.9 NC_003444.1 + 8733 0.69 0.46908
Target:  5'- gCCAgCGACGGuACCCGcuuuggucccggUCAGGCgAUUGUc -3'
miRNA:   3'- -GGU-GCUGUC-UGGGC------------AGUCCGaUGACG- -5'
13587 5' -54.9 NC_003444.1 + 13729 0.69 0.458862
Target:  5'- aCAgGGCAGGCUaCGggggCAGGCUguAUUGCg -3'
miRNA:   3'- gGUgCUGUCUGG-GCa---GUCCGA--UGACG- -5'
13587 5' -54.9 NC_003444.1 + 1405 0.7 0.419231
Target:  5'- aCugGACcGACCCG-CAGG-UGCUGg -3'
miRNA:   3'- gGugCUGuCUGGGCaGUCCgAUGACg -5'
13587 5' -54.9 NC_003444.1 + 10935 0.71 0.372731
Target:  5'- uUCGCGGCG---UCGUCGGGCUuGCUGCc -3'
miRNA:   3'- -GGUGCUGUcugGGCAGUCCGA-UGACG- -5'
13587 5' -54.9 NC_003444.1 + 35920 0.71 0.363861
Target:  5'- aCCGCGGCAuAUUCGUCAGGCaaucgACcguUGCa -3'
miRNA:   3'- -GGUGCUGUcUGGGCAGUCCGa----UG---ACG- -5'
13587 5' -54.9 NC_003444.1 + 36678 1.15 0.000286
Target:  5'- aCCACGACAGACCCGUCAGGCUACUGCg -3'
miRNA:   3'- -GGUGCUGUCUGGGCAGUCCGAUGACG- -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.