miRNA display CGI


Results 1 - 20 of 64 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
23357 3' -58.4 NC_005259.1 + 68699 0.7 0.422349
Target:  5'- aUCGaGGCGGGCA--GCGCgUCGGugCc -3'
miRNA:   3'- -GGCgUCGCCCGUcaUGUGgAGCCugG- -5'
23357 3' -58.4 NC_005259.1 + 67234 0.67 0.579452
Target:  5'- aCCaCGGCGGuGUAGggguugagcgGgGCCUCGGGCa -3'
miRNA:   3'- -GGcGUCGCC-CGUCa---------UgUGGAGCCUGg -5'
23357 3' -58.4 NC_005259.1 + 66600 0.66 0.66319
Target:  5'- gCCGCAuccaugcagguGgGGGCGGUAUuUCUCGucccuGGCCa -3'
miRNA:   3'- -GGCGU-----------CgCCCGUCAUGuGGAGC-----CUGG- -5'
23357 3' -58.4 NC_005259.1 + 66254 0.66 0.61077
Target:  5'- aCGCAGCGcGGCcc-GCGCCgggCGGcggcucacGCCg -3'
miRNA:   3'- gGCGUCGC-CCGucaUGUGGa--GCC--------UGG- -5'
23357 3' -58.4 NC_005259.1 + 65259 0.66 0.652723
Target:  5'- uUCGCAGCcaaGGGCgagggugugugGGUGCugCcgUGGAUCu -3'
miRNA:   3'- -GGCGUCG---CCCG-----------UCAUGugGa-GCCUGG- -5'
23357 3' -58.4 NC_005259.1 + 64787 0.69 0.449988
Target:  5'- nCCGCuGCGacuGGCuGUGUGCCUCGG-CCu -3'
miRNA:   3'- -GGCGuCGC---CCGuCAUGUGGAGCCuGG- -5'
23357 3' -58.4 NC_005259.1 + 64757 0.71 0.345922
Target:  5'- aCCGCGccucGCGa-CGGUGCGCCUCGGcgGCCc -3'
miRNA:   3'- -GGCGU----CGCccGUCAUGUGGAGCC--UGG- -5'
23357 3' -58.4 NC_005259.1 + 63730 0.69 0.459421
Target:  5'- gCGCAGCcGGUAGcgACAUCUCGG-Cg -3'
miRNA:   3'- gGCGUCGcCCGUCa-UGUGGAGCCuGg -5'
23357 3' -58.4 NC_005259.1 + 63653 0.68 0.528134
Target:  5'- cUCGCuGGcCGGGacgcCGG-ACACCUCGGGCa -3'
miRNA:   3'- -GGCG-UC-GCCC----GUCaUGUGGAGCCUGg -5'
23357 3' -58.4 NC_005259.1 + 63172 0.69 0.46513
Target:  5'- gCCGCAGCGccgccgaGGUGaucgcaccccggucGUGCGCCUC-GACCg -3'
miRNA:   3'- -GGCGUCGC-------CCGU--------------CAUGUGGAGcCUGG- -5'
23357 3' -58.4 NC_005259.1 + 62445 0.69 0.488328
Target:  5'- aCGCAGCagugaguguGGGCAGUACAaa--GGGCa -3'
miRNA:   3'- gGCGUCG---------CCCGUCAUGUggagCCUGg -5'
23357 3' -58.4 NC_005259.1 + 61830 0.72 0.315284
Target:  5'- -aGCAGCauguugcugccaGGGguGaGCACCUCGG-CCa -3'
miRNA:   3'- ggCGUCG------------CCCguCaUGUGGAGCCuGG- -5'
23357 3' -58.4 NC_005259.1 + 60507 0.67 0.600303
Target:  5'- gCCGguGUugucGUAGUGCGCCauggcCGGGCCg -3'
miRNA:   3'- -GGCguCGcc--CGUCAUGUGGa----GCCUGG- -5'
23357 3' -58.4 NC_005259.1 + 60165 0.68 0.528134
Target:  5'- -aGCGGCcucacGGGCGGcgaACGCCUgcucgaccgacCGGGCCa -3'
miRNA:   3'- ggCGUCG-----CCCGUCa--UGUGGA-----------GCCUGG- -5'
23357 3' -58.4 NC_005259.1 + 58929 0.66 0.66319
Target:  5'- gUCGuCGGCGGGCgcGGUGgcaGCgUCGG-CCu -3'
miRNA:   3'- -GGC-GUCGCCCG--UCAUg--UGgAGCCuGG- -5'
23357 3' -58.4 NC_005259.1 + 58808 0.71 0.362022
Target:  5'- gCCuCGGCGGGCucgcGCugCUCGGcACCc -3'
miRNA:   3'- -GGcGUCGCCCGuca-UGugGAGCC-UGG- -5'
23357 3' -58.4 NC_005259.1 + 58771 0.72 0.307952
Target:  5'- aCGCuGCGGGCGcuGUGCGCCggUCGaGGCg -3'
miRNA:   3'- gGCGuCGCCCGU--CAUGUGG--AGC-CUGg -5'
23357 3' -58.4 NC_005259.1 + 58334 0.66 0.652723
Target:  5'- -gGCAGCGagaucaGGuCGGUG-GCCUCGGGCa -3'
miRNA:   3'- ggCGUCGC------CC-GUCAUgUGGAGCCUGg -5'
23357 3' -58.4 NC_005259.1 + 57521 0.66 0.631746
Target:  5'- aCCGCAGCGcuugccgacGGCGaugGCGuCCUCGGugaacauCCg -3'
miRNA:   3'- -GGCGUCGC---------CCGUca-UGU-GGAGCCu------GG- -5'
23357 3' -58.4 NC_005259.1 + 56026 0.67 0.558758
Target:  5'- cUCGC--CGGGCGGgACuuCCUCGGGCg -3'
miRNA:   3'- -GGCGucGCCCGUCaUGu-GGAGCCUGg -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.