miRNA display CGI


Results 1 - 20 of 221 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
5228 3' -63.6 NC_001798.1 + 1195 0.67 0.522693
Target:  5'- -cCCGCCGcGG-CCAGCAccguccccgcGCGGC-CCg -3'
miRNA:   3'- gaGGCGGCcCCgGGUCGU----------UGCCGaGG- -5'
5228 3' -63.6 NC_001798.1 + 1337 0.69 0.384378
Target:  5'- -cCCGCCGcGGCCC-GCG-CaGCUCCg -3'
miRNA:   3'- gaGGCGGCcCCGGGuCGUuGcCGAGG- -5'
5228 3' -63.6 NC_001798.1 + 1480 0.68 0.486031
Target:  5'- --gCGCCGGGcgccauggcgucGCCCgcgcccgaGGCGGCGGC-CCg -3'
miRNA:   3'- gagGCGGCCC------------CGGG--------UCGUUGCCGaGG- -5'
5228 3' -63.6 NC_001798.1 + 2092 0.68 0.486031
Target:  5'- aCUCCGgggGGGGCCCgcccccGGCG-CGGC-CCg -3'
miRNA:   3'- -GAGGCgg-CCCCGGG------UCGUuGCCGaGG- -5'
5228 3' -63.6 NC_001798.1 + 2124 0.66 0.560371
Target:  5'- -gCgGCCaGGuccucGCCCGGCAGCGGCg-- -3'
miRNA:   3'- gaGgCGGcCC-----CGGGUCGUUGCCGagg -5'
5228 3' -63.6 NC_001798.1 + 2205 0.67 0.495086
Target:  5'- -gCCGCCGcgcggcgcagcGGGCCCGaggcgcGCAGCGGg-CCg -3'
miRNA:   3'- gaGGCGGC-----------CCCGGGU------CGUUGCCgaGG- -5'
5228 3' -63.6 NC_001798.1 + 2380 0.67 0.532028
Target:  5'- -cCCG-CGGGGCgCAGUAggccuccaggGCGGCggCCg -3'
miRNA:   3'- gaGGCgGCCCCGgGUCGU----------UGCCGa-GG- -5'
5228 3' -63.6 NC_001798.1 + 2429 0.67 0.541423
Target:  5'- -gUgGCUGGGcCCCGGCGGCuGGCggcgCCa -3'
miRNA:   3'- gaGgCGGCCCcGGGUCGUUG-CCGa---GG- -5'
5228 3' -63.6 NC_001798.1 + 2459 0.66 0.589115
Target:  5'- -gCCGCCcugcgggucGGGGCCCucGGCGggccgGCGGgUCa -3'
miRNA:   3'- gaGGCGG---------CCCCGGG--UCGU-----UGCCgAGg -5'
5228 3' -63.6 NC_001798.1 + 2502 0.68 0.468162
Target:  5'- -gCCGCggggcgCGGcGGCCgCGGCGGCGGCgUCg -3'
miRNA:   3'- gaGGCG------GCC-CCGG-GUCGUUGCCG-AGg -5'
5228 3' -63.6 NC_001798.1 + 2801 0.7 0.351533
Target:  5'- gCUCCGCgGcagcgccgggcccaGGGcCCCGGCGACcaGGCUCa -3'
miRNA:   3'- -GAGGCGgC--------------CCC-GGGUCGUUG--CCGAGg -5'
5228 3' -63.6 NC_001798.1 + 3010 0.71 0.324903
Target:  5'- --gCGCgGGGGCgCGGCGGgccgGGCUCCg -3'
miRNA:   3'- gagGCGgCCCCGgGUCGUUg---CCGAGG- -5'
5228 3' -63.6 NC_001798.1 + 3305 0.67 0.522693
Target:  5'- -gCCGCCgacggcaacGGGGCggCGGCGGCGGCgggcuUCCc -3'
miRNA:   3'- gaGGCGG---------CCCCGg-GUCGUUGCCG-----AGG- -5'
5228 3' -63.6 NC_001798.1 + 3476 0.68 0.459354
Target:  5'- uUCUGCgCGcGGUCgUAGCGGCGGCUCa -3'
miRNA:   3'- gAGGCG-GCcCCGG-GUCGUUGCCGAGg -5'
5228 3' -63.6 NC_001798.1 + 3523 0.66 0.608428
Target:  5'- gUgCGCCaGGcCCCAGCcgaAGCGGC-CCg -3'
miRNA:   3'- gAgGCGGcCCcGGGUCG---UUGCCGaGG- -5'
5228 3' -63.6 NC_001798.1 + 3825 0.68 0.450636
Target:  5'- cCUCCGCCucGGGcGCCCcccagaGGCcggGGCGGCUg- -3'
miRNA:   3'- -GAGGCGG--CCC-CGGG------UCG---UUGCCGAgg -5'
5228 3' -63.6 NC_001798.1 + 3896 0.68 0.486031
Target:  5'- ---gGCgGGGGgCCGGCcccgggccACGGCUCCc -3'
miRNA:   3'- gaggCGgCCCCgGGUCGu-------UGCCGAGG- -5'
5228 3' -63.6 NC_001798.1 + 3992 0.77 0.124838
Target:  5'- -aCCGCCGGGgccGCCCGGCcgugaAGCGGC-CCg -3'
miRNA:   3'- gaGGCGGCCC---CGGGUCG-----UUGCCGaGG- -5'
5228 3' -63.6 NC_001798.1 + 4042 0.82 0.055757
Target:  5'- -aCCGCCGcgcGGGCCCGGCGGCG-CUCCa -3'
miRNA:   3'- gaGGCGGC---CCCGGGUCGUUGCcGAGG- -5'
5228 3' -63.6 NC_001798.1 + 4084 0.68 0.450636
Target:  5'- -gCCGCgGGGGUCCGGgCcggGGCgGGCUCg -3'
miRNA:   3'- gaGGCGgCCCCGGGUC-G---UUG-CCGAGg -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.