miRNA display CGI


Results 1 - 18 of 18 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
16072 5' -45.1 NC_004065.1 + 206774 0.66 1
Target:  5'- gUCAACCGccguUGgcGGAGGGagggUGUCGGg -3'
miRNA:   3'- -AGUUGGCcu--ACaaCUUUCCa---AUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 67654 0.66 1
Target:  5'- gUCGAgCGGGUGUccgaaGAGGGGUUuucccgguccgAUCGGc -3'
miRNA:   3'- -AGUUgGCCUACAa----CUUUCCAA-----------UAGCU- -5'
16072 5' -45.1 NC_004065.1 + 229653 0.66 1
Target:  5'- cCGGCCGGcgGcagUGgcAGGUgggcGUCGGg -3'
miRNA:   3'- aGUUGGCCuaCa--ACuuUCCAa---UAGCU- -5'
16072 5' -45.1 NC_004065.1 + 227998 0.66 1
Target:  5'- cCAGCCGGA------GAGGUUGUCa- -3'
miRNA:   3'- aGUUGGCCUacaacuUUCCAAUAGcu -5'
16072 5' -45.1 NC_004065.1 + 34651 0.66 1
Target:  5'- cUCGGCCGucacGGUGUccaGGAAGGccGUCGAg -3'
miRNA:   3'- -AGUUGGC----CUACAa--CUUUCCaaUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 3280 0.67 0.999999
Target:  5'- gUCGGCUGG-UGUUGGugacGGUuguacUGUCGAg -3'
miRNA:   3'- -AGUUGGCCuACAACUuu--CCA-----AUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 214686 0.67 0.999999
Target:  5'- gUCGcGCCGGAUGUUGAcgAAGaagUAUaCGAa -3'
miRNA:   3'- -AGU-UGGCCUACAACU--UUCca-AUA-GCU- -5'
16072 5' -45.1 NC_004065.1 + 120598 0.68 0.999997
Target:  5'- cUCGGCCGGGUGcac-GAGG--AUCGAg -3'
miRNA:   3'- -AGUUGGCCUACaacuUUCCaaUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 77762 0.68 0.999996
Target:  5'- cUCGACCuGGAUGUccuccGAcAGGUUaugGUCGGu -3'
miRNA:   3'- -AGUUGG-CCUACAa----CUuUCCAA---UAGCU- -5'
16072 5' -45.1 NC_004065.1 + 63408 0.68 0.999994
Target:  5'- gCGACUGGAUGagcuucUUGggGGGUUAcacccagugCGAc -3'
miRNA:   3'- aGUUGGCCUAC------AACuuUCCAAUa--------GCU- -5'
16072 5' -45.1 NC_004065.1 + 82419 0.68 0.999992
Target:  5'- aCGACCGcGGUGUUGGucuGGUccugCGAg -3'
miRNA:   3'- aGUUGGC-CUACAACUuu-CCAaua-GCU- -5'
16072 5' -45.1 NC_004065.1 + 185046 0.68 0.999989
Target:  5'- cUCGGCCGGG-GgaGAAcGGGUcgcUGUCGAa -3'
miRNA:   3'- -AGUUGGCCUaCaaCUU-UCCA---AUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 200573 0.69 0.999971
Target:  5'- -gAACaCGGGUGgaGAAGGGUgGUCGc -3'
miRNA:   3'- agUUG-GCCUACaaCUUUCCAaUAGCu -5'
16072 5' -45.1 NC_004065.1 + 211667 0.7 0.999947
Target:  5'- uUCGugCGGAUcGUUcGAGGGGgagccGUCGAa -3'
miRNA:   3'- -AGUugGCCUA-CAA-CUUUCCaa---UAGCU- -5'
16072 5' -45.1 NC_004065.1 + 176450 0.73 0.998566
Target:  5'- gUCGAuCUGGGUGUcggGGAGGGaUGUCGGg -3'
miRNA:   3'- -AGUU-GGCCUACAa--CUUUCCaAUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 113871 0.73 0.997922
Target:  5'- gCGACUGGAUaGUgGGGAGGUUcgCGGc -3'
miRNA:   3'- aGUUGGCCUA-CAaCUUUCCAAuaGCU- -5'
16072 5' -45.1 NC_004065.1 + 137091 0.8 0.905734
Target:  5'- gUCAACCGGAUGUcGAAAauUUAUCGAu -3'
miRNA:   3'- -AGUUGGCCUACAaCUUUccAAUAGCU- -5'
16072 5' -45.1 NC_004065.1 + 92964 1.11 0.039195
Target:  5'- gUCAACCGGAUGUUGAAAGGUUAUCGAu -3'
miRNA:   3'- -AGUUGGCCUACAACUUUCCAAUAGCU- -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.