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 + 22094 0.68 0.509653
Target:  5'- gGC-CCUGAacaCGGGCccuCCCCCuUGAUg -3'
miRNA:   3'- aCGaGGACU---GCCCGu--GGGGGuACUGg -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 + 28388 0.68 0.519397
Target:  5'- aUGCUCUUGA-GGGUGCCCgCGuUGAUg -3'
miRNA:   3'- -ACGAGGACUgCCCGUGGGgGU-ACUGg -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 + 23867 0.68 0.559049
Target:  5'- aGcCUCCgGGCGGG-ACCCUCuUGACa -3'
miRNA:   3'- aC-GAGGaCUGCCCgUGGGGGuACUGg -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 + 72687 0.67 0.589336
Target:  5'- gUGCggCgUGACGGGUGaCCCCGUGGg- -3'
miRNA:   3'- -ACGa-GgACUGCCCGUgGGGGUACUgg -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 + 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 + 12585 0.78 0.143291
Target:  5'- aGCUCCUGACGGuGU-CUCCCGUggaGACCa -3'
miRNA:   3'- aCGAGGACUGCC-CGuGGGGGUA---CUGG- -5'
28354 5' -59.8 NC_005946.1 + 59555 0.76 0.184681
Target:  5'- cGCUCCcaugGGaGCACCCaCCAUGACCa -3'
miRNA:   3'- aCGAGGacugCC-CGUGGG-GGUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 31484 0.72 0.306416
Target:  5'- aUGCaaccgUCCagGACGGuGUACCugCCCAUGGCCa -3'
miRNA:   3'- -ACG-----AGGa-CUGCC-CGUGG--GGGUACUGG- -5'
28354 5' -59.8 NC_005946.1 + 27453 0.71 0.350946
Target:  5'- aGcCUCCUGAgGGGCccGCCCUC--GGCCg -3'
miRNA:   3'- aC-GAGGACUgCCCG--UGGGGGuaCUGG- -5'
28354 5' -59.8 NC_005946.1 + 26950 0.71 0.358801
Target:  5'- gUGUUCCaGGCGGGCuuCCUCUGccUGGCCa -3'
miRNA:   3'- -ACGAGGaCUGCCCGu-GGGGGU--ACUGG- -5'
28354 5' -59.8 NC_005946.1 + 95152 0.71 0.391429
Target:  5'- aGgUCCUcGCGGGCAUCUCCAgcccgGACg -3'
miRNA:   3'- aCgAGGAcUGCCCGUGGGGGUa----CUGg -5'
28354 5' -59.8 NC_005946.1 + 22173 0.7 0.408453
Target:  5'- cUGC-CCUGGcCGcGGcCGCUCCCcUGACCg -3'
miRNA:   3'- -ACGaGGACU-GC-CC-GUGGGGGuACUGG- -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.