miRNA display CGI


Results 1 - 20 of 39 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
30853 3' -55.2 NC_006552.1 + 32379 0.66 0.79214
Target:  5'- uGAGCcaguCGGCcACGUCCUGGuCCGACCa -3'
miRNA:   3'- cUUCGc---GCUGaUGUGGGACU-GGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 51710 0.66 0.79214
Target:  5'- cAAGaccaGCGACgagAUugCCgcgaUGAUCGACCg -3'
miRNA:   3'- cUUCg---CGCUGa--UGugGG----ACUGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 6298 0.66 0.79214
Target:  5'- uGGAuaGUGGCUACGC--UGGCCGGCUg -3'
miRNA:   3'- -CUUcgCGCUGAUGUGggACUGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 59483 0.66 0.782444
Target:  5'- uGAGGCGCcACUucgGCGCUCUcACCuGCCg -3'
miRNA:   3'- -CUUCGCGcUGA---UGUGGGAcUGGcUGG- -5'
30853 3' -55.2 NC_006552.1 + 44073 0.66 0.779506
Target:  5'- -cGGCGCG-CUuccucuucgccgccGCGCuCUUGGCCGGCg -3'
miRNA:   3'- cuUCGCGCuGA--------------UGUG-GGACUGGCUGg -5'
30853 3' -55.2 NC_006552.1 + 31947 0.66 0.772598
Target:  5'- uGAAGcCGCGAUacaGCGCCCacugGACCagauGCCg -3'
miRNA:   3'- -CUUC-GCGCUGa--UGUGGGa---CUGGc---UGG- -5'
30853 3' -55.2 NC_006552.1 + 63804 0.66 0.772598
Target:  5'- -cGGUGCGcuaGCUucgGCGCCCaGGCCaGCCa -3'
miRNA:   3'- cuUCGCGC---UGA---UGUGGGaCUGGcUGG- -5'
30853 3' -55.2 NC_006552.1 + 6178 0.66 0.766622
Target:  5'- --cGCGCGcGCUcaACcuuGCCCUGgucuuucucgaagauGCCGGCCg -3'
miRNA:   3'- cuuCGCGC-UGA--UG---UGGGAC---------------UGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 9731 0.66 0.762611
Target:  5'- -uGGCGCGAUU-CAUCagcaUGgcGCCGGCCu -3'
miRNA:   3'- cuUCGCGCUGAuGUGGg---AC--UGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 54255 0.67 0.742259
Target:  5'- -cAGCGCGccCUGCGCCUcccaggaguUGACC-ACCu -3'
miRNA:   3'- cuUCGCGCu-GAUGUGGG---------ACUGGcUGG- -5'
30853 3' -55.2 NC_006552.1 + 17433 0.67 0.736065
Target:  5'- aGGGCGCgucagaaguugcaugGACUGCGggucguacUCCUGGCCG-CCa -3'
miRNA:   3'- cUUCGCG---------------CUGAUGU--------GGGACUGGCuGG- -5'
30853 3' -55.2 NC_006552.1 + 56036 0.67 0.731916
Target:  5'- uGGAGUuCGACUcaggcuccgACACCCUG-CUGAUCc -3'
miRNA:   3'- -CUUCGcGCUGA---------UGUGGGACuGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 50280 0.67 0.731916
Target:  5'- uGAAGCcaaauGCGACUgGCGCCC--GCCGGgCg -3'
miRNA:   3'- -CUUCG-----CGCUGA-UGUGGGacUGGCUgG- -5'
30853 3' -55.2 NC_006552.1 + 45403 0.67 0.721476
Target:  5'- -cGGCGcCGACgaauucccCGCCCggGGCCGGCg -3'
miRNA:   3'- cuUCGC-GCUGau------GUGGGa-CUGGCUGg -5'
30853 3' -55.2 NC_006552.1 + 63134 0.67 0.700349
Target:  5'- cGAGCGCGGCgaACACCCgcacACCGcggagcaggcgaACCu -3'
miRNA:   3'- cUUCGCGCUGa-UGUGGGac--UGGC------------UGG- -5'
30853 3' -55.2 NC_006552.1 + 32519 0.67 0.699285
Target:  5'- gGGAGCGCGccaaGCcgUGCugCUUGACCagguucaGGCCg -3'
miRNA:   3'- -CUUCGCGC----UG--AUGugGGACUGG-------CUGG- -5'
30853 3' -55.2 NC_006552.1 + 33750 0.67 0.689684
Target:  5'- -cAGCGCGGCggcgGCAUUgCUGuugagcagaacGCCGGCCg -3'
miRNA:   3'- cuUCGCGCUGa---UGUGG-GAC-----------UGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 37805 0.67 0.689684
Target:  5'- -cGGCGCGAucauuggcauCUGCGCgaUCUGggcGCCGGCCu -3'
miRNA:   3'- cuUCGCGCU----------GAUGUG--GGAC---UGGCUGG- -5'
30853 3' -55.2 NC_006552.1 + 44563 0.67 0.689684
Target:  5'- cGGGCaGCGcCUGCugCCUGGCaCGAgUg -3'
miRNA:   3'- cUUCG-CGCuGAUGugGGACUG-GCUgG- -5'
30853 3' -55.2 NC_006552.1 + 26789 0.69 0.624926
Target:  5'- aGAGGCcCGcagUUGCGCCUUG-CCGGCCg -3'
miRNA:   3'- -CUUCGcGCu--GAUGUGGGACuGGCUGG- -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.