miRNA display CGI


Results 1 - 20 of 23 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
28100 5' -51.1 NC_005887.1 + 41035 0.66 0.861967
Target:  5'- -uGGAAUUCGAUUUcGCUCauggaaaaccgGGCGUCGc -3'
miRNA:   3'- cuUCUUAAGCUGGA-CGAG-----------CCGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 11772 0.66 0.861967
Target:  5'- -uGGGAUcUCGGCggcguccucgCUGCUCGGCggCGUc -3'
miRNA:   3'- cuUCUUA-AGCUG----------GACGAGCCGuaGCA- -5'
28100 5' -51.1 NC_005887.1 + 1807 0.66 0.861967
Target:  5'- cGAAGGAcgugccgcCGACCUGgUaCGGCAUCu- -3'
miRNA:   3'- -CUUCUUaa------GCUGGACgA-GCCGUAGca -5'
28100 5' -51.1 NC_005887.1 + 15598 0.66 0.844188
Target:  5'- cGAcuGGUUCGACCUGgaCGaGCcgAUCGUg -3'
miRNA:   3'- -CUucUUAAGCUGGACgaGC-CG--UAGCA- -5'
28100 5' -51.1 NC_005887.1 + 6455 0.66 0.842354
Target:  5'- cGAAGugcgCGACCUGaaguacgggcgCGGCGUCGc -3'
miRNA:   3'- -CUUCuuaaGCUGGACga---------GCCGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 10141 0.66 0.835859
Target:  5'- cGAAGAAgcCGGCCggagcgacgucuacgGCU-GGCAUCGg -3'
miRNA:   3'- -CUUCUUaaGCUGGa--------------CGAgCCGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 28044 0.67 0.815687
Target:  5'- --cGGcgUCGGCCUGCgcuugCGGguUCa- -3'
miRNA:   3'- cuuCUuaAGCUGGACGa----GCCguAGca -5'
28100 5' -51.1 NC_005887.1 + 1941 0.67 0.795594
Target:  5'- --cGAGUUCGACCgGCacgUCGGCcgUGc -3'
miRNA:   3'- cuuCUUAAGCUGGaCG---AGCCGuaGCa -5'
28100 5' -51.1 NC_005887.1 + 1571 0.67 0.774742
Target:  5'- --cGAAccUCGACCgccgGCUCGGCGgcgcgCGg -3'
miRNA:   3'- cuuCUUa-AGCUGGa---CGAGCCGUa----GCa -5'
28100 5' -51.1 NC_005887.1 + 17461 0.68 0.764063
Target:  5'- cGAAGAa---GACCgaGCgcgCGGCAUCGg -3'
miRNA:   3'- -CUUCUuaagCUGGa-CGa--GCCGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 2150 0.68 0.742267
Target:  5'- gGAAGAccUCGACCUgGC-CGGCggCGa -3'
miRNA:   3'- -CUUCUuaAGCUGGA-CGaGCCGuaGCa -5'
28100 5' -51.1 NC_005887.1 + 33916 0.68 0.742267
Target:  5'- cGGGAGUgaagccuucgcgUCGACCUGCcgaCGGCGcUCGg -3'
miRNA:   3'- cUUCUUA------------AGCUGGACGa--GCCGU-AGCa -5'
28100 5' -51.1 NC_005887.1 + 28791 0.68 0.731176
Target:  5'- ------gUCGGCCUGCUCGggcggcagcGCAUCGc -3'
miRNA:   3'- cuucuuaAGCUGGACGAGC---------CGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 3987 0.68 0.716595
Target:  5'- cGAGGAGgcgugcuugauggcUUCGACCUGCguucCGGCG-CGc -3'
miRNA:   3'- -CUUCUU--------------AAGCUGGACGa---GCCGUaGCa -5'
28100 5' -51.1 NC_005887.1 + 4415 0.69 0.713206
Target:  5'- cGAAGGcgcggCGAuCCUgcaaugguugcagcaGCUCGGCAUCGUc -3'
miRNA:   3'- -CUUCUuaa--GCU-GGA---------------CGAGCCGUAGCA- -5'
28100 5' -51.1 NC_005887.1 + 11697 0.69 0.708676
Target:  5'- uGAAGAAgUCGAC--GCUCGaGCGUCGc -3'
miRNA:   3'- -CUUCUUaAGCUGgaCGAGC-CGUAGCa -5'
28100 5' -51.1 NC_005887.1 + 8927 0.69 0.674333
Target:  5'- cGAGGA--UCG-UCUGCUCGGUcgCGg -3'
miRNA:   3'- -CUUCUuaAGCuGGACGAGCCGuaGCa -5'
28100 5' -51.1 NC_005887.1 + 16384 0.71 0.581676
Target:  5'- cGAAGug-UCGAagaUGCUCGGCGUCu- -3'
miRNA:   3'- -CUUCuuaAGCUgg-ACGAGCCGUAGca -5'
28100 5' -51.1 NC_005887.1 + 6877 0.71 0.563329
Target:  5'- gGAuGAAUgUCGACCUGCucgacaacgaacgccUCGGCGUCa- -3'
miRNA:   3'- -CUuCUUA-AGCUGGACG---------------AGCCGUAGca -5'
28100 5' -51.1 NC_005887.1 + 17966 0.75 0.370936
Target:  5'- aAAGAAUugaUCGACCUGCagcgCGGC-UCGUg -3'
miRNA:   3'- cUUCUUA---AGCUGGACGa---GCCGuAGCA- -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.