miRNA display CGI


Results 1 - 14 of 14 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
30848 3' -56.8 NC_006552.1 + 20563 0.66 0.691538
Target:  5'- ----cUGCCUGGCGAGCA--UCcCCGg -3'
miRNA:   3'- ggacuACGGACCGCUCGUcaAGcGGU- -5'
30848 3' -56.8 NC_006552.1 + 5268 0.66 0.680835
Target:  5'- gCCUGccgguaguUGCC-GGCGAGCAagUCGCg- -3'
miRNA:   3'- -GGACu-------ACGGaCCGCUCGUcaAGCGgu -5'
30848 3' -56.8 NC_006552.1 + 64615 0.66 0.660385
Target:  5'- cCCUGGUGCUccagcaccacgguacGGcCGAcGCuGUUCGCCGc -3'
miRNA:   3'- -GGACUACGGa--------------CC-GCU-CGuCAAGCGGU- -5'
30848 3' -56.8 NC_006552.1 + 60336 0.66 0.660385
Target:  5'- cCCUGAUGCCggacauugaguggccGGCGAaggGCcAG-UCGCUAg -3'
miRNA:   3'- -GGACUACGGa--------------CCGCU---CG-UCaAGCGGU- -5'
30848 3' -56.8 NC_006552.1 + 25201 0.66 0.659305
Target:  5'- cCUUGGUGCUguUGGUcAGCAGcgcggCGCCGu -3'
miRNA:   3'- -GGACUACGG--ACCGcUCGUCaa---GCGGU- -5'
30848 3' -56.8 NC_006552.1 + 58341 0.66 0.637678
Target:  5'- uCCUG--GCCUcGCGggGGCAGuUUCGCCGu -3'
miRNA:   3'- -GGACuaCGGAcCGC--UCGUC-AAGCGGU- -5'
30848 3' -56.8 NC_006552.1 + 12952 0.67 0.626852
Target:  5'- gCUGGccuugGCCUGGCGGuGC-GUUCgagGCCAg -3'
miRNA:   3'- gGACUa----CGGACCGCU-CGuCAAG---CGGU- -5'
30848 3' -56.8 NC_006552.1 + 60522 0.67 0.613867
Target:  5'- aCCUGcUGCCgagccccgucucGGCcAGCAccGUUCGCCGg -3'
miRNA:   3'- -GGACuACGGa-----------CCGcUCGU--CAAGCGGU- -5'
30848 3' -56.8 NC_006552.1 + 12379 0.67 0.605222
Target:  5'- uUCUGcaacgGCCUGcGCGucGGCGGUgUCGCCu -3'
miRNA:   3'- -GGACua---CGGAC-CGC--UCGUCA-AGCGGu -5'
30848 3' -56.8 NC_006552.1 + 54228 0.67 0.572967
Target:  5'- cUCUGGaaagUGcCCUGGCGAGCaaaccAGcgCGCCc -3'
miRNA:   3'- -GGACU----AC-GGACCGCUCG-----UCaaGCGGu -5'
30848 3' -56.8 NC_006552.1 + 64494 0.69 0.489518
Target:  5'- gCUGGcgGCCUGGCaGGCGGggUGCUu -3'
miRNA:   3'- gGACUa-CGGACCGcUCGUCaaGCGGu -5'
30848 3' -56.8 NC_006552.1 + 13180 0.69 0.489518
Target:  5'- uUCUGcguacgcucgaAUGCCUGGCGgaacucgucGGCGG-UCGCCu -3'
miRNA:   3'- -GGAC-----------UACGGACCGC---------UCGUCaAGCGGu -5'
30848 3' -56.8 NC_006552.1 + 25810 0.7 0.449941
Target:  5'- -gUGAUGCC-GGCGAGCA---CGCCc -3'
miRNA:   3'- ggACUACGGaCCGCUCGUcaaGCGGu -5'
30848 3' -56.8 NC_006552.1 + 44571 0.71 0.385195
Target:  5'- gCCUGcUGCCUGGCacgaguGAGCAGg-CGCUc -3'
miRNA:   3'- -GGACuACGGACCG------CUCGUCaaGCGGu -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.