miRNA display CGI


Results 1 - 20 of 28 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
28354 5' -59.8 NC_005946.1 + 40108 0.66 0.681061
Target:  5'- gGggCCUGACGGGgACCCU----GCCg -3'
miRNA:   3'- aCgaGGACUGCCCgUGGGGguacUGG- -5'
28354 5' -59.8 NC_005946.1 + 21788 0.66 0.660744
Target:  5'- cGCUggccgaucgCCUGuCGGaCAgCCCgGUGACCa -3'
miRNA:   3'- aCGA---------GGACuGCCcGUgGGGgUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 8571 0.66 0.660744
Target:  5'- gGCUa-UGGCuucGGGCACCCCCAccucGuCCa -3'
miRNA:   3'- aCGAggACUG---CCCGUGGGGGUa---CuGG- -5'
28354 5' -59.8 NC_005946.1 + 93966 0.66 0.660744
Target:  5'- cUGUcugUCCUGAU---CACCCCCAUGuACCc -3'
miRNA:   3'- -ACG---AGGACUGcccGUGGGGGUAC-UGG- -5'
28354 5' -59.8 NC_005946.1 + 40709 0.66 0.660744
Target:  5'- cUGCUCCcaccagGAUGGGU--UUCCAUGACUc -3'
miRNA:   3'- -ACGAGGa-----CUGCCCGugGGGGUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 4074 0.66 0.650547
Target:  5'- gGUgaCCUGACaGGGCugUCCCAucaUGGuCCu -3'
miRNA:   3'- aCGa-GGACUG-CCCGugGGGGU---ACU-GG- -5'
28354 5' -59.8 NC_005946.1 + 99472 0.66 0.630117
Target:  5'- cGUUCUUGAggcagauuggccUGGGCACCUCCAcuucgGugCc -3'
miRNA:   3'- aCGAGGACU------------GCCCGUGGGGGUa----CugG- -5'
28354 5' -59.8 NC_005946.1 + 83125 0.67 0.619901
Target:  5'- aGCcgUCCUGAgGGaGCccACUCCCA-GGCCc -3'
miRNA:   3'- aCG--AGGACUgCC-CG--UGGGGGUaCUGG- -5'
28354 5' -59.8 NC_005946.1 + 49537 0.67 0.599503
Target:  5'- aGCUCCUGACGGacucuuggguGCAcgaucCCUCCcUGAUg -3'
miRNA:   3'- aCGAGGACUGCC----------CGU-----GGGGGuACUGg -5'
28354 5' -59.8 NC_005946.1 + 72687 0.67 0.589336
Target:  5'- gUGCggCgUGACGGGUGaCCCCGUGGg- -3'
miRNA:   3'- -ACGa-GgACUGCCCGUgGGGGUACUgg -5'
28354 5' -59.8 NC_005946.1 + 17738 0.67 0.569103
Target:  5'- cGUUCCUGGCcgGGGCACUCUUucuuaucuUGACg -3'
miRNA:   3'- aCGAGGACUG--CCCGUGGGGGu-------ACUGg -5'
28354 5' -59.8 NC_005946.1 + 23867 0.68 0.559049
Target:  5'- aGcCUCCgGGCGGG-ACCCUCuUGACa -3'
miRNA:   3'- aC-GAGGaCUGCCCgUGGGGGuACUGg -5'
28354 5' -59.8 NC_005946.1 + 26463 0.68 0.539099
Target:  5'- uUGCgcacugCCUGACGGGCuuggucaagaccACCCCgCAgagGuCCc -3'
miRNA:   3'- -ACGa-----GGACUGCCCG------------UGGGG-GUa--CuGG- -5'
28354 5' -59.8 NC_005946.1 + 28388 0.68 0.519397
Target:  5'- aUGCUCUUGA-GGGUGCCCgCGuUGAUg -3'
miRNA:   3'- -ACGAGGACUgCCCGUGGGgGU-ACUGg -5'
28354 5' -59.8 NC_005946.1 + 49732 0.68 0.519397
Target:  5'- -aCUCUUGGacCGGGCAugUCCCguUGACCg -3'
miRNA:   3'- acGAGGACU--GCCCGU--GGGGguACUGG- -5'
28354 5' -59.8 NC_005946.1 + 22094 0.68 0.509653
Target:  5'- gGC-CCUGAacaCGGGCccuCCCCCuUGAUg -3'
miRNA:   3'- aCGaGGACU---GCCCGu--GGGGGuACUGg -5'
28354 5' -59.8 NC_005946.1 + 17552 0.69 0.499985
Target:  5'- cGCugaUCCUGAUGgacucuacuccGGCcuCUCCCAUGGCCu -3'
miRNA:   3'- aCG---AGGACUGC-----------CCGu-GGGGGUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 48460 0.69 0.452963
Target:  5'- gGCUCCcucUGGCagGGGUucgGCCUgCAUGACCc -3'
miRNA:   3'- aCGAGG---ACUG--CCCG---UGGGgGUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 98390 0.7 0.443847
Target:  5'- cGCUCUUGACGGGaucUACCgcaagggcuggcUCCAgGACCg -3'
miRNA:   3'- aCGAGGACUGCCC---GUGG------------GGGUaCUGG- -5'
28354 5' -59.8 NC_005946.1 + 48660 0.7 0.42948
Target:  5'- aGCUCCUG-CGcGCagGCCCCCAUcgcagaaggguccaaGGCCa -3'
miRNA:   3'- aCGAGGACuGCcCG--UGGGGGUA---------------CUGG- -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.