miRNA display CGI


Results 1 - 20 of 22 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
31829 5' -61.9 NC_006938.1 + 12960 0.66 0.450703
Target:  5'- cCCGGcGAGCgCCUgGuCCaggauUGGCCCa -3'
miRNA:   3'- aGGCCuCUCGaGGAgCuGG-----ACCGGGc -5'
31829 5' -61.9 NC_006938.1 + 52232 0.66 0.450703
Target:  5'- -gCGGAGGGCUCUUugguggaggaggUGGCCUguucggagGGCUCGg -3'
miRNA:   3'- agGCCUCUCGAGGA------------GCUGGA--------CCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 29976 0.66 0.432331
Target:  5'- -gCGGAGGGUg-CUgGAUCUGGCuCCGc -3'
miRNA:   3'- agGCCUCUCGagGAgCUGGACCG-GGC- -5'
31829 5' -61.9 NC_006938.1 + 10719 0.66 0.432331
Target:  5'- -gCGGGGAcGUaggucaUCUCGACCaucUGGCCCGg -3'
miRNA:   3'- agGCCUCU-CGa-----GGAGCUGG---ACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 24759 0.66 0.423311
Target:  5'- aCCGGcaccuGCUCC-CG-CgUGGCCCGg -3'
miRNA:   3'- aGGCCucu--CGAGGaGCuGgACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 49523 0.66 0.414404
Target:  5'- cCUGGGaaacuaaacGAGgUCCUCGACUucUGGCUCa -3'
miRNA:   3'- aGGCCU---------CUCgAGGAGCUGG--ACCGGGc -5'
31829 5' -61.9 NC_006938.1 + 24124 0.67 0.388389
Target:  5'- cUCCGGcucguGGC-CCUUGACCUuGGCCUu -3'
miRNA:   3'- -AGGCCuc---UCGaGGAGCUGGA-CCGGGc -5'
31829 5' -61.9 NC_006938.1 + 17627 0.67 0.385002
Target:  5'- -aCGGGGAGCUggucggagccaaCCUCGGCUacgaccuggacugGGCCUGg -3'
miRNA:   3'- agGCCUCUCGA------------GGAGCUGGa------------CCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 58461 0.67 0.379959
Target:  5'- -gCGGAGAcCUUUgUCGGCCUGGCCa- -3'
miRNA:   3'- agGCCUCUcGAGG-AGCUGGACCGGgc -5'
31829 5' -61.9 NC_006938.1 + 10039 0.67 0.379959
Target:  5'- cUCCuG-GAGCUCCUCuggaagGACCUGGCggaCGu -3'
miRNA:   3'- -AGGcCuCUCGAGGAG------CUGGACCGg--GC- -5'
31829 5' -61.9 NC_006938.1 + 7209 0.67 0.379959
Target:  5'- cUCCGGAcgGAGCUCguggagCUUGACCUcuccGGCUCc -3'
miRNA:   3'- -AGGCCU--CUCGAG------GAGCUGGA----CCGGGc -5'
31829 5' -61.9 NC_006938.1 + 16276 0.68 0.339681
Target:  5'- gCCGGAGcGCUgggUCggCGAcagccCCUGGCCCGc -3'
miRNA:   3'- aGGCCUCuCGA---GGa-GCU-----GGACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 4149 0.68 0.309751
Target:  5'- aUCCGaGAgGAGCUCa-UGGCCaUGGUCCGg -3'
miRNA:   3'- -AGGC-CU-CUCGAGgaGCUGG-ACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 59357 0.69 0.295556
Target:  5'- aCCGGAGguGGCUCUggcaCGACCaucgucGGUCCGa -3'
miRNA:   3'- aGGCCUC--UCGAGGa---GCUGGa-----CCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 33125 0.7 0.243841
Target:  5'- -aCGGAcgGAGCUCCUCcACCU-GCCCu -3'
miRNA:   3'- agGCCU--CUCGAGGAGcUGGAcCGGGc -5'
31829 5' -61.9 NC_006938.1 + 12505 0.7 0.243245
Target:  5'- aCCGGAGAGaUCCUgGcgggacaGCCccGGCCCGa -3'
miRNA:   3'- aGGCCUCUCgAGGAgC-------UGGa-CCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 10290 0.71 0.215493
Target:  5'- aCUGuGAGAacguccacguGCUCCUCggccguGACCUGGUCCGa -3'
miRNA:   3'- aGGC-CUCU----------CGAGGAG------CUGGACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 36509 0.71 0.204968
Target:  5'- aCCGGcAGGGggaugagauccCUCUcgcCGACCUGGCCCGu -3'
miRNA:   3'- aGGCC-UCUC-----------GAGGa--GCUGGACCGGGC- -5'
31829 5' -61.9 NC_006938.1 + 28575 0.72 0.180589
Target:  5'- -aCGGAgGAGCUCCUCcuuCUUGGCCgGg -3'
miRNA:   3'- agGCCU-CUCGAGGAGcu-GGACCGGgC- -5'
31829 5' -61.9 NC_006938.1 + 5702 0.75 0.101482
Target:  5'- uUCCGGAGGcGUUCCUUGGCCuccuugagcuUGGCCuCGa -3'
miRNA:   3'- -AGGCCUCU-CGAGGAGCUGG----------ACCGG-GC- -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.