miRNA display CGI


Results 1 - 20 of 27 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
22834 3' -45.4 NC_005135.1 + 82608 0.66 0.999994
Target:  5'- --cGCAAAAAUAGUaucUUCCGuugGGAGaGCu -3'
miRNA:   3'- uuaUGUUUUUAUCG---GAGGCu--UCUC-CG- -5'
22834 3' -45.4 NC_005135.1 + 154704 0.66 0.999991
Target:  5'- ---cCAAAGG-AGCC-CCGAAG-GGCu -3'
miRNA:   3'- uuauGUUUUUaUCGGaGGCUUCuCCG- -5'
22834 3' -45.4 NC_005135.1 + 65816 0.66 0.999991
Target:  5'- uAAUGCGcAGGAUGGCC----AAGAGGCa -3'
miRNA:   3'- -UUAUGU-UUUUAUCGGaggcUUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 43248 0.67 0.999965
Target:  5'- cAAUGCAuucgcgacuuAGGGUGGCgaCCGucGAGGUg -3'
miRNA:   3'- -UUAUGU----------UUUUAUCGgaGGCuuCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 166803 0.67 0.999937
Target:  5'- ---cCAAAA--GGCCUCUucGGAGGCc -3'
miRNA:   3'- uuauGUUUUuaUCGGAGGcuUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 30227 0.68 0.999854
Target:  5'- uAUACGAcAAaGGCCUCacuuGGAGGCc -3'
miRNA:   3'- uUAUGUUuUUaUCGGAGgcu-UCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 42226 0.68 0.99981
Target:  5'- ---cCGAA---AGcCCUCCGAAGAGGg -3'
miRNA:   3'- uuauGUUUuuaUC-GGAGGCUUCUCCg -5'
22834 3' -45.4 NC_005135.1 + 25909 0.68 0.999755
Target:  5'- ---uCGAAuaucuGCCUCCGAAaAGGCa -3'
miRNA:   3'- uuauGUUUuuau-CGGAGGCUUcUCCG- -5'
22834 3' -45.4 NC_005135.1 + 154874 0.69 0.999686
Target:  5'- uGGUACGGGucguGCUUCUcauaGAGGAGGCg -3'
miRNA:   3'- -UUAUGUUUuuauCGGAGG----CUUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 100794 0.69 0.999686
Target:  5'- cGGUGCAccGAAAUAGagaCUCgCGAAggcGAGGCu -3'
miRNA:   3'- -UUAUGU--UUUUAUCg--GAG-GCUU---CUCCG- -5'
22834 3' -45.4 NC_005135.1 + 11304 0.69 0.999601
Target:  5'- --gACAAAAAUAGUUUuuGggGAaGCa -3'
miRNA:   3'- uuaUGUUUUUAUCGGAggCuuCUcCG- -5'
22834 3' -45.4 NC_005135.1 + 30439 0.69 0.999497
Target:  5'- --aGCAAGGAagaaGGCCUCCaaguGAGGCc -3'
miRNA:   3'- uuaUGUUUUUa---UCGGAGGcuu-CUCCG- -5'
22834 3' -45.4 NC_005135.1 + 35084 0.72 0.994944
Target:  5'- uAAU-CAAAAcgGGCCUCUccGGAGGCc -3'
miRNA:   3'- -UUAuGUUUUuaUCGGAGGcuUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 67365 0.72 0.994083
Target:  5'- uGUugGcccuUGGCCUCCGAcGAGGUu -3'
miRNA:   3'- uUAugUuuuuAUCGGAGGCUuCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 74080 0.73 0.990776
Target:  5'- uGAUACAAAAAaauGcCCUCCGuAGAGGg -3'
miRNA:   3'- -UUAUGUUUUUau-C-GGAGGCuUCUCCg -5'
22834 3' -45.4 NC_005135.1 + 28817 0.73 0.989397
Target:  5'- uAUACAAAAAUAGgCUCCGuAGAGc- -3'
miRNA:   3'- uUAUGUUUUUAUCgGAGGCuUCUCcg -5'
22834 3' -45.4 NC_005135.1 + 4416 0.73 0.987863
Target:  5'- --gACGAAAA-GGCCUCUucGGAGGCc -3'
miRNA:   3'- uuaUGUUUUUaUCGGAGGcuUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 134151 0.74 0.979957
Target:  5'- --aACAAAAAUGcCCUCCGuAGAGGg -3'
miRNA:   3'- uuaUGUUUUUAUcGGAGGCuUCUCCg -5'
22834 3' -45.4 NC_005135.1 + 64277 0.74 0.974799
Target:  5'- aAAUGCcugaaguuAAAUAGCCUCUucGGAGGCu -3'
miRNA:   3'- -UUAUGuu------UUUAUCGGAGGcuUCUCCG- -5'
22834 3' -45.4 NC_005135.1 + 16254 0.78 0.90375
Target:  5'- --aACAAAAAgacCCUCCGAAGAGGg -3'
miRNA:   3'- uuaUGUUUUUaucGGAGGCUUCUCCg -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.