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
16399 3' -53.9 NC_004084.1 + 45512 0.66 0.844886
Target:  5'- ---cCGGgcCGGUCGGCCACUCcgaGGAc -3'
miRNA:   3'- ccuaGCCa-GCCAGUUGGUGAGcg-UCU- -5'
16399 3' -53.9 NC_004084.1 + 48710 0.66 0.844886
Target:  5'- cGGcAUCGGcgUCGGcCAACuCAC-CGCGGu -3'
miRNA:   3'- -CC-UAGCC--AGCCaGUUG-GUGaGCGUCu -5'
16399 3' -53.9 NC_004084.1 + 3666 0.66 0.827264
Target:  5'- aGGAcguUCGucgCGGUCGcCCGCUCGCu-- -3'
miRNA:   3'- -CCU---AGCca-GCCAGUuGGUGAGCGucu -5'
16399 3' -53.9 NC_004084.1 + 21789 0.66 0.808831
Target:  5'- cGGAUcucgucgaCGGUCGccgacGUCAGCUguGCUCGCAa- -3'
miRNA:   3'- -CCUA--------GCCAGC-----CAGUUGG--UGAGCGUcu -5'
16399 3' -53.9 NC_004084.1 + 13046 0.66 0.804105
Target:  5'- cGAUCGacacgcugacgauUCGGUUcccaccgGAUCACUCGCAGAg -3'
miRNA:   3'- cCUAGCc------------AGCCAG-------UUGGUGAGCGUCU- -5'
16399 3' -53.9 NC_004084.1 + 10829 0.66 0.798376
Target:  5'- aGAUCGGUCGGgcagggauacCAGCCucuggagcgccgaACUCGUGGu -3'
miRNA:   3'- cCUAGCCAGCCa---------GUUGG-------------UGAGCGUCu -5'
16399 3' -53.9 NC_004084.1 + 29770 0.67 0.789666
Target:  5'- ---gCGGUaGGUCGuCCcCUCGCGGAa -3'
miRNA:   3'- ccuaGCCAgCCAGUuGGuGAGCGUCU- -5'
16399 3' -53.9 NC_004084.1 + 50575 0.67 0.789666
Target:  5'- cGGGUCGaucuccUCGGUCAGuuGCUCGUg-- -3'
miRNA:   3'- -CCUAGCc-----AGCCAGUUggUGAGCGucu -5'
16399 3' -53.9 NC_004084.1 + 53384 0.67 0.779835
Target:  5'- cGAUCGccgGGUCAACgUACUCGCGGc -3'
miRNA:   3'- cCUAGCcagCCAGUUG-GUGAGCGUCu -5'
16399 3' -53.9 NC_004084.1 + 5439 0.67 0.759731
Target:  5'- uGGAUCGcGaUCGGcgacCAGCgCACUCGCGa- -3'
miRNA:   3'- -CCUAGC-C-AGCCa---GUUG-GUGAGCGUcu -5'
16399 3' -53.9 NC_004084.1 + 39268 0.67 0.749479
Target:  5'- aGAUggUGGUC-GUCGAUCGCgUCGCGGAc -3'
miRNA:   3'- cCUA--GCCAGcCAGUUGGUG-AGCGUCU- -5'
16399 3' -53.9 NC_004084.1 + 29104 0.68 0.73911
Target:  5'- ---aCGGUCGGgCGGCCACuccuggggcgUCGCGGu -3'
miRNA:   3'- ccuaGCCAGCCaGUUGGUG----------AGCGUCu -5'
16399 3' -53.9 NC_004084.1 + 26200 0.68 0.728635
Target:  5'- uGGAUCGGagguauUCGGcacagacagCGACCACUCcucuuggacugaGCGGAg -3'
miRNA:   3'- -CCUAGCC------AGCCa--------GUUGGUGAG------------CGUCU- -5'
16399 3' -53.9 NC_004084.1 + 48088 0.68 0.718064
Target:  5'- ----aGGUC-GUCGACCAuCUCGCAGu -3'
miRNA:   3'- ccuagCCAGcCAGUUGGU-GAGCGUCu -5'
16399 3' -53.9 NC_004084.1 + 58486 0.7 0.620455
Target:  5'- gGGGUCuucgaagucgaGGUCGuGUCGGCCACcgagaUgGCAGAg -3'
miRNA:   3'- -CCUAG-----------CCAGC-CAGUUGGUG-----AgCGUCU- -5'
16399 3' -53.9 NC_004084.1 + 35136 0.7 0.620455
Target:  5'- --cUCGGgacUGGUCGGCCGCUCGgucucCAGAc -3'
miRNA:   3'- ccuAGCCa--GCCAGUUGGUGAGC-----GUCU- -5'
16399 3' -53.9 NC_004084.1 + 24719 0.71 0.566096
Target:  5'- uGGAaCGGUCGcG-UAGCCACUCGCc-- -3'
miRNA:   3'- -CCUaGCCAGC-CaGUUGGUGAGCGucu -5'
16399 3' -53.9 NC_004084.1 + 21552 0.71 0.566096
Target:  5'- -cGUCGGUCGGguacggacuguUCAGCguccguucgaggCGCUCGCGGAc -3'
miRNA:   3'- ccUAGCCAGCC-----------AGUUG------------GUGAGCGUCU- -5'
16399 3' -53.9 NC_004084.1 + 25822 0.71 0.566096
Target:  5'- uGGAaCGGUCGcG-UAGCCACUCGCc-- -3'
miRNA:   3'- -CCUaGCCAGC-CaGUUGGUGAGCGucu -5'
16399 3' -53.9 NC_004084.1 + 17213 0.71 0.555351
Target:  5'- -aGUCGacgcUCGGUCAaacACCGCUCGguGAa -3'
miRNA:   3'- ccUAGCc---AGCCAGU---UGGUGAGCguCU- -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.