miRNA display CGI


Results 1 - 20 of 26 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
16373 5' -56.2 NC_004084.1 + 1719 0.66 0.677973
Target:  5'- gGAGGAUGGCGGcuGCUCgaUCG-GUg- -3'
miRNA:   3'- aCUUCUACCGCCu-CGAGg-AGCuCGug -5'
16373 5' -56.2 NC_004084.1 + 3102 0.66 0.677973
Target:  5'- ------cGGCGG-GCUCCUcauccaCGAGUACg -3'
miRNA:   3'- acuucuaCCGCCuCGAGGA------GCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 43287 0.66 0.665927
Target:  5'- aGGAGAUcGGCGucucaccGGGCaucguccaccUCCUCGGGCGa -3'
miRNA:   3'- aCUUCUA-CCGC-------CUCG----------AGGAGCUCGUg -5'
16373 5' -56.2 NC_004084.1 + 27459 0.66 0.645039
Target:  5'- cGGAGcgGGagaCGGucGGCgUCCUCGAGCuCg -3'
miRNA:   3'- aCUUCuaCC---GCC--UCG-AGGAGCUCGuG- -5'
16373 5' -56.2 NC_004084.1 + 4042 0.67 0.601006
Target:  5'- gUGAAGggGGCGGAGUUgaCggagaagGGGCGCg -3'
miRNA:   3'- -ACUUCuaCCGCCUCGAg-Gag-----CUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 43452 0.67 0.601006
Target:  5'- ---cGA-GGUGGuGCUCCUgGAGCGu -3'
miRNA:   3'- acuuCUaCCGCCuCGAGGAgCUCGUg -5'
16373 5' -56.2 NC_004084.1 + 37111 0.67 0.601006
Target:  5'- cGGAGAUcGCGGAgcguggugGCUUCUCGAcGCGg -3'
miRNA:   3'- aCUUCUAcCGCCU--------CGAGGAGCU-CGUg -5'
16373 5' -56.2 NC_004084.1 + 22607 0.67 0.590041
Target:  5'- aGAcGGUGGU-GAGCUCaugacCGAGCGCg -3'
miRNA:   3'- aCUuCUACCGcCUCGAGga---GCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 45531 0.67 0.588947
Target:  5'- cGAGGAcgccgggauggguUGGCGcGAGgaCCUCGaAGCGg -3'
miRNA:   3'- aCUUCU-------------ACCGC-CUCgaGGAGC-UCGUg -5'
16373 5' -56.2 NC_004084.1 + 53519 0.67 0.579112
Target:  5'- aGGAGAUcGGCGGGaCcCaCUCGGGCAUc -3'
miRNA:   3'- aCUUCUA-CCGCCUcGaG-GAGCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 46958 0.67 0.575841
Target:  5'- cGggGcGUGGCGGcAGCcgacgcaaacgcugUCCUCGAGgAa -3'
miRNA:   3'- aCuuC-UACCGCC-UCG--------------AGGAGCUCgUg -5'
16373 5' -56.2 NC_004084.1 + 39265 0.68 0.534847
Target:  5'- gGAAGAUGGUGGucgucgaucGCgucgcggacucgaUCgUCGAGCACc -3'
miRNA:   3'- aCUUCUACCGCCu--------CG-------------AGgAGCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 17289 0.68 0.51473
Target:  5'- aGgcGGUGGCGGcGGUggCggCGAGCACa -3'
miRNA:   3'- aCuuCUACCGCC-UCGagGa-GCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 35003 0.69 0.493894
Target:  5'- gUGAcgAGAUGGCcggGGAGCU--UCGAGUGCu -3'
miRNA:   3'- -ACU--UCUACCG---CCUCGAggAGCUCGUG- -5'
16373 5' -56.2 NC_004084.1 + 51398 0.69 0.492863
Target:  5'- -cGAGAUGGCGGccgacgccgucgaGGC-CUUCGAGgGCg -3'
miRNA:   3'- acUUCUACCGCC-------------UCGaGGAGCUCgUG- -5'
16373 5' -56.2 NC_004084.1 + 30879 0.7 0.424323
Target:  5'- ---cGAUGGC-GAGCUUCUCGAcaacgGCGCg -3'
miRNA:   3'- acuuCUACCGcCUCGAGGAGCU-----CGUG- -5'
16373 5' -56.2 NC_004084.1 + 36204 0.7 0.424323
Target:  5'- cGgcGA-GGCGGGGaaccucuccgguCUCCUCGAGgGCa -3'
miRNA:   3'- aCuuCUaCCGCCUC------------GAGGAGCUCgUG- -5'
16373 5' -56.2 NC_004084.1 + 43491 0.7 0.424323
Target:  5'- cGAAGAUGcGCuGcGGCUCgUCGAGCGu -3'
miRNA:   3'- aCUUCUAC-CGcC-UCGAGgAGCUCGUg -5'
16373 5' -56.2 NC_004084.1 + 7953 0.71 0.369588
Target:  5'- cGAGGA--GCGGAGuCUCCUCGAuCAUg -3'
miRNA:   3'- aCUUCUacCGCCUC-GAGGAGCUcGUG- -5'
16373 5' -56.2 NC_004084.1 + 10208 0.71 0.369588
Target:  5'- aGgcGAucgccUGGaGGAGUUCCUUGAGUACg -3'
miRNA:   3'- aCuuCU-----ACCgCCUCGAGGAGCUCGUG- -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.