miRNA display CGI


Results 1 - 20 of 34 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
24824 5' -54.7 NC_005284.1 + 44617 1.08 0.001224
Target:  5'- gCAAGCCGGAACCAACCGAGCGCAUCAu -3'
miRNA:   3'- -GUUCGGCCUUGGUUGGCUCGCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 36287 0.78 0.151033
Target:  5'- --cGCCGGAAUCGacgucacGCCGAGCGCGUUc -3'
miRNA:   3'- guuCGGCCUUGGU-------UGGCUCGCGUAGu -5'
24824 5' -54.7 NC_005284.1 + 19648 0.78 0.164583
Target:  5'- ----aCGGAGCCGACCGGGCGCA-CAu -3'
miRNA:   3'- guucgGCCUUGGUUGGCUCGCGUaGU- -5'
24824 5' -54.7 NC_005284.1 + 23578 0.76 0.2047
Target:  5'- -cAGCCGGAGCgGGUCGAGCGguUCAu -3'
miRNA:   3'- guUCGGCCUUGgUUGGCUCGCguAGU- -5'
24824 5' -54.7 NC_005284.1 + 44254 0.73 0.326123
Target:  5'- cCAGGCCggcgaGGAAUCGAUCGAGCGCugccugAUCGg -3'
miRNA:   3'- -GUUCGG-----CCUUGGUUGGCUCGCG------UAGU- -5'
24824 5' -54.7 NC_005284.1 + 24399 0.73 0.350912
Target:  5'- aCAuGCCG--ACCAgcacacgcggGCCGAGCGCAUCGc -3'
miRNA:   3'- -GUuCGGCcuUGGU----------UGGCUCGCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 43857 0.72 0.37701
Target:  5'- gAGGCCGG--CCAugCGGgccuGCGCAUCAu -3'
miRNA:   3'- gUUCGGCCuuGGUugGCU----CGCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 17876 0.72 0.385995
Target:  5'- aAGGCCGGccGCCGGaucggCGGGCGCAUCc -3'
miRNA:   3'- gUUCGGCCu-UGGUUg----GCUCGCGUAGu -5'
24824 5' -54.7 NC_005284.1 + 11758 0.71 0.41758
Target:  5'- --cGCUGGGuucGCCcgaguacaucgccgaGAUCGAGCGCAUCAa -3'
miRNA:   3'- guuCGGCCU---UGG---------------UUGGCUCGCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 42028 0.7 0.503961
Target:  5'- gCGAGCgCGu-GCCGGCCGAGCgGCAUgGa -3'
miRNA:   3'- -GUUCG-GCcuUGGUUGGCUCG-CGUAgU- -5'
24824 5' -54.7 NC_005284.1 + 24917 0.69 0.525174
Target:  5'- aCAcGCCGGcGCCGACCaucgcGAGaUGCGUCGg -3'
miRNA:   3'- -GUuCGGCCuUGGUUGG-----CUC-GCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 48126 0.69 0.557595
Target:  5'- -cGGCCGucGCCaAACCcGGCGCGUCu -3'
miRNA:   3'- guUCGGCcuUGG-UUGGcUCGCGUAGu -5'
24824 5' -54.7 NC_005284.1 + 20705 0.69 0.568533
Target:  5'- -cGGCaCGGAACCGggggcgGCCGAgGCGUAUUu -3'
miRNA:   3'- guUCG-GCCUUGGU------UGGCU-CGCGUAGu -5'
24824 5' -54.7 NC_005284.1 + 42636 0.68 0.578423
Target:  5'- uCGAGCCGacAGCCGcgcuugccgcaccACCGAGCGCGcCGa -3'
miRNA:   3'- -GUUCGGCc-UUGGU-------------UGGCUCGCGUaGU- -5'
24824 5' -54.7 NC_005284.1 + 16085 0.68 0.579525
Target:  5'- uGAGCCGGcAGCCGauacguccAUCGAGCcuuucgccGCGUCGa -3'
miRNA:   3'- gUUCGGCC-UUGGU--------UGGCUCG--------CGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 26235 0.68 0.601632
Target:  5'- uGAGUCGGGuCUcuCCGAGCGCGa-- -3'
miRNA:   3'- gUUCGGCCUuGGuuGGCUCGCGUagu -5'
24824 5' -54.7 NC_005284.1 + 38584 0.68 0.601632
Target:  5'- -cGGCCGu--UCGGCCGAGCGCAcgCGg -3'
miRNA:   3'- guUCGGCcuuGGUUGGCUCGCGUa-GU- -5'
24824 5' -54.7 NC_005284.1 + 22547 0.68 0.601632
Target:  5'- cCGGGCCuGAACCuGCU--GCGCAUCGa -3'
miRNA:   3'- -GUUCGGcCUUGGuUGGcuCGCGUAGU- -5'
24824 5' -54.7 NC_005284.1 + 38879 0.68 0.61273
Target:  5'- aAAGCCgGGAAUCAgcACCGAuaGCGCGcgCAc -3'
miRNA:   3'- gUUCGG-CCUUGGU--UGGCU--CGCGUa-GU- -5'
24824 5' -54.7 NC_005284.1 + 18837 0.68 0.623846
Target:  5'- gGGGCCGGGcgugcaggGgCAGCCGAGCacGgAUCAa -3'
miRNA:   3'- gUUCGGCCU--------UgGUUGGCUCG--CgUAGU- -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.