miRNA display CGI


Results 1 - 20 of 38 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
28067 3' -50.5 NC_005887.1 + 12160 0.66 0.902094
Target:  5'- cUGGCCGGCgagaaGUgGAAGcUGCAGG-CGu -3'
miRNA:   3'- -ACUGGUCGag---CAgCUUC-AUGUUCuGC- -5'
28067 3' -50.5 NC_005887.1 + 26876 0.66 0.902094
Target:  5'- cGGCCAGCUCGaacgCGucuuGGUGC---GCGg -3'
miRNA:   3'- aCUGGUCGAGCa---GCu---UCAUGuucUGC- -5'
28067 3' -50.5 NC_005887.1 + 8744 0.66 0.902094
Target:  5'- aGACCAcgccgcGCUCG-CGcAGaaccUGCAAGACGu -3'
miRNA:   3'- aCUGGU------CGAGCaGCuUC----AUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 40786 0.66 0.894801
Target:  5'- -aGCCGGCg-GUCGAGGUuCGuGGCGg -3'
miRNA:   3'- acUGGUCGagCAGCUUCAuGUuCUGC- -5'
28067 3' -50.5 NC_005887.1 + 26749 0.66 0.894801
Target:  5'- cGAUCGGCUCGUCcAGGUcgaACcAGuCGg -3'
miRNA:   3'- aCUGGUCGAGCAGcUUCA---UGuUCuGC- -5'
28067 3' -50.5 NC_005887.1 + 24416 0.66 0.894801
Target:  5'- uUGACgAGCUCGuUCGugcgcacgcAGGUcgcgaGCAGGACa -3'
miRNA:   3'- -ACUGgUCGAGC-AGC---------UUCA-----UGUUCUGc -5'
28067 3' -50.5 NC_005887.1 + 31692 0.66 0.894801
Target:  5'- cGGCUGGUUCGUCGGcAGaACcucGGACGc -3'
miRNA:   3'- aCUGGUCGAGCAGCU-UCaUGu--UCUGC- -5'
28067 3' -50.5 NC_005887.1 + 16729 0.66 0.887216
Target:  5'- cGGCCGGCgcgaucaaGUCGGAuUACAugcggcAGACGa -3'
miRNA:   3'- aCUGGUCGag------CAGCUUcAUGU------UCUGC- -5'
28067 3' -50.5 NC_005887.1 + 14691 0.66 0.887216
Target:  5'- cGAUCgGGCUCGUCGcGGcggGCGGGcCGg -3'
miRNA:   3'- aCUGG-UCGAGCAGCuUCa--UGUUCuGC- -5'
28067 3' -50.5 NC_005887.1 + 15143 0.66 0.886442
Target:  5'- cGACCGaccccaugcaggcGCUCGacggcauggCGAAGUACcuGGCGg -3'
miRNA:   3'- aCUGGU-------------CGAGCa--------GCUUCAUGuuCUGC- -5'
28067 3' -50.5 NC_005887.1 + 9458 0.66 0.879344
Target:  5'- cGACCAGgUgGUCacGGGUACGGuGGCGa -3'
miRNA:   3'- aCUGGUCgAgCAGc-UUCAUGUU-CUGC- -5'
28067 3' -50.5 NC_005887.1 + 1664 0.66 0.871191
Target:  5'- -uGCCAGC-CGUgCGcgcgcgccAGGUGCAGGAUGg -3'
miRNA:   3'- acUGGUCGaGCA-GC--------UUCAUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 13465 0.67 0.854074
Target:  5'- cUGACgGGCgcgcaggCGcUGAAGgACAAGACGg -3'
miRNA:   3'- -ACUGgUCGa------GCaGCUUCaUGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 15632 0.67 0.845127
Target:  5'- cGGCCgGGCUCGcCGAu---CAGGGCGc -3'
miRNA:   3'- aCUGG-UCGAGCaGCUucauGUUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 11309 0.67 0.835933
Target:  5'- cGGCCGGCUCGgcagCGAGcgccGCAAccgcGACGg -3'
miRNA:   3'- aCUGGUCGAGCa---GCUUca--UGUU----CUGC- -5'
28067 3' -50.5 NC_005887.1 + 26971 0.67 0.835933
Target:  5'- cGAUCAGCgcggCGUCGAccUGCucGGGCGu -3'
miRNA:   3'- aCUGGUCGa---GCAGCUucAUGu-UCUGC- -5'
28067 3' -50.5 NC_005887.1 + 5893 0.67 0.826503
Target:  5'- cGACCGGaaCGUCGAgcucGGUcGCcAGGCGa -3'
miRNA:   3'- aCUGGUCgaGCAGCU----UCA-UGuUCUGC- -5'
28067 3' -50.5 NC_005887.1 + 1747 0.68 0.816848
Target:  5'- cGGCCAcacacGCUCGUCGAGGaaccGCGGGuuGu -3'
miRNA:   3'- aCUGGU-----CGAGCAGCUUCa---UGUUCugC- -5'
28067 3' -50.5 NC_005887.1 + 11658 0.68 0.816848
Target:  5'- cGcACCuGCUCGcCGA-GUACGAGGuCGa -3'
miRNA:   3'- aC-UGGuCGAGCaGCUuCAUGUUCU-GC- -5'
28067 3' -50.5 NC_005887.1 + 38581 0.68 0.816848
Target:  5'- cGGCC--CUCGUCGAgccAGUACGAcGCGa -3'
miRNA:   3'- aCUGGucGAGCAGCU---UCAUGUUcUGC- -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.