miRNA display CGI


Results 1 - 20 of 25 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
20797 3' -51.5 NC_004689.1 + 54777 0.66 0.948346
Target:  5'- aCCCGCcagGGCGuuggcucGGGGCaGAUGGCcgaccagacgGGCCa -3'
miRNA:   3'- -GGGUGca-CCGU-------UUUUG-CUACCG----------UCGG- -5'
20797 3' -51.5 NC_004689.1 + 63745 0.66 0.9441
Target:  5'- cUCCGCGUGGUccaugucguAGGCGAUGucGUacauGGCCg -3'
miRNA:   3'- -GGGUGCACCGuu-------UUUGCUAC--CG----UCGG- -5'
20797 3' -51.5 NC_004689.1 + 54845 0.66 0.939121
Target:  5'- aCgGCgGUGGgAAcgGGGCGGUGGUGGCg -3'
miRNA:   3'- gGgUG-CACCgUU--UUUGCUACCGUCGg -5'
20797 3' -51.5 NC_004689.1 + 2544 0.66 0.939121
Target:  5'- uCCCAgcgauaUGUGGgGAuuACGGUGGCccucagAGCa -3'
miRNA:   3'- -GGGU------GCACCgUUuuUGCUACCG------UCGg -5'
20797 3' -51.5 NC_004689.1 + 25456 0.66 0.933867
Target:  5'- uCCCAC-UGGCcGGAuCGAUcuucGGCGGgCCu -3'
miRNA:   3'- -GGGUGcACCGuUUUuGCUA----CCGUC-GG- -5'
20797 3' -51.5 NC_004689.1 + 4746 0.66 0.933867
Target:  5'- gCCCAUGUccGGUucu-ACGA-GGUAGUCg -3'
miRNA:   3'- -GGGUGCA--CCGuuuuUGCUaCCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 4021 0.66 0.933867
Target:  5'- cCCCACccgugugggGGCGAGAACG--GGCAcGCUu -3'
miRNA:   3'- -GGGUGca-------CCGUUUUUGCuaCCGU-CGG- -5'
20797 3' -51.5 NC_004689.1 + 19312 0.66 0.928334
Target:  5'- aCgACGgccuUGGCAAGAucgcggaacuGCGGaGGCAGCUu -3'
miRNA:   3'- gGgUGC----ACCGUUUU----------UGCUaCCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 57373 0.66 0.928334
Target:  5'- --aGCGUGaGCGAuguuGAACGcguaaccGGCAGCCg -3'
miRNA:   3'- gggUGCAC-CGUU----UUUGCua-----CCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 51421 0.67 0.916434
Target:  5'- gCCCaagGCGUaccGGCGAAGAUGGUauucGCGGUCg -3'
miRNA:   3'- -GGG---UGCA---CCGUUUUUGCUAc---CGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 7357 0.67 0.909416
Target:  5'- cCCCGgcUGUGGUAcauguccGAGGCu-UGGCGGCUg -3'
miRNA:   3'- -GGGU--GCACCGU-------UUUUGcuACCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 65822 0.67 0.896512
Target:  5'- aCCUugauuuCGUGGCGGuucgcuuGCGAUGGUccucuGCCc -3'
miRNA:   3'- -GGGu-----GCACCGUUuu-----UGCUACCGu----CGG- -5'
20797 3' -51.5 NC_004689.1 + 28370 0.67 0.887124
Target:  5'- uUCCACGUuGCcgucaucGAACuugaucgugccgcuGGUGGCAGCCg -3'
miRNA:   3'- -GGGUGCAcCGuu-----UUUG--------------CUACCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 69640 0.68 0.855515
Target:  5'- aCCAUGaucGGCAGAAACaucggcacacgguuGAUGGUGGCg -3'
miRNA:   3'- gGGUGCa--CCGUUUUUG--------------CUACCGUCGg -5'
20797 3' -51.5 NC_004689.1 + 30427 0.69 0.822922
Target:  5'- gCCCACcagGGCAGGu-UGAUGGUaaaggugccAGCCg -3'
miRNA:   3'- -GGGUGca-CCGUUUuuGCUACCG---------UCGG- -5'
20797 3' -51.5 NC_004689.1 + 42538 0.69 0.813617
Target:  5'- aCCgGCGaUGGUgccuccCGaAUGGCAGCCa -3'
miRNA:   3'- -GGgUGC-ACCGuuuuu-GC-UACCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 40226 0.69 0.813617
Target:  5'- gCCAcCGUGGaGGAucgugcaaucGGCGcUGGCAGCCc -3'
miRNA:   3'- gGGU-GCACCgUUU----------UUGCuACCGUCGG- -5'
20797 3' -51.5 NC_004689.1 + 50442 0.69 0.804122
Target:  5'- gCCaguuGCGguaGCAGAAGCGGUGGCuuuuucGCCg -3'
miRNA:   3'- -GGg---UGCac-CGUUUUUGCUACCGu-----CGG- -5'
20797 3' -51.5 NC_004689.1 + 31568 0.7 0.784596
Target:  5'- aCCCAgCGagGGaugGAAAGCGAUGGaCuGCCa -3'
miRNA:   3'- -GGGU-GCa-CCg--UUUUUGCUACC-GuCGG- -5'
20797 3' -51.5 NC_004689.1 + 62441 0.7 0.784596
Target:  5'- aCCCAcCGUGGUAGucguuGCGcgGGUAGaUCa -3'
miRNA:   3'- -GGGU-GCACCGUUuu---UGCuaCCGUC-GG- -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.