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
11305 3' -43.6 NC_003083.1 + 92862 0.66 0.999999
Target:  5'- uGU-CGGUUGCGAa---GGCGGUuuGCu -3'
miRNA:   3'- -CAuGCUAAUGUUaaaaCCGCCAugCG- -5'
11305 3' -43.6 NC_003083.1 + 6539 0.66 0.999999
Target:  5'- uUAUGAUUAUAGcugaa-CGGUGCGCg -3'
miRNA:   3'- cAUGCUAAUGUUaaaaccGCCAUGCG- -5'
11305 3' -43.6 NC_003083.1 + 65260 0.66 0.999999
Target:  5'- aUGCGGaacugcUGCAAgucaaugUUUGGCGGcGCGUu -3'
miRNA:   3'- cAUGCUa-----AUGUUa------AAACCGCCaUGCG- -5'
11305 3' -43.6 NC_003083.1 + 109898 0.66 0.999999
Target:  5'- ----aGUUGCAAg-UUGGCugcGGUGCGCg -3'
miRNA:   3'- caugcUAAUGUUaaAACCG---CCAUGCG- -5'
11305 3' -43.6 NC_003083.1 + 47652 0.66 0.999998
Target:  5'- gGUACGAUgguUGCA---UUGGCGGcgGCuGUa -3'
miRNA:   3'- -CAUGCUA---AUGUuaaAACCGCCa-UG-CG- -5'
11305 3' -43.6 NC_003083.1 + 87690 0.66 0.999998
Target:  5'- --cCGAUgcaaACGAag-UGGCGG-ACGCg -3'
miRNA:   3'- cauGCUAa---UGUUaaaACCGCCaUGCG- -5'
11305 3' -43.6 NC_003083.1 + 25416 0.67 0.999996
Target:  5'- ---aGAUUACGAa-UUGGUGGUGCu- -3'
miRNA:   3'- caugCUAAUGUUaaAACCGCCAUGcg -5'
11305 3' -43.6 NC_003083.1 + 12923 0.67 0.999994
Target:  5'- -aACGGc--CAAaagUUGGCGGUGgGCg -3'
miRNA:   3'- caUGCUaauGUUaa-AACCGCCAUgCG- -5'
11305 3' -43.6 NC_003083.1 + 117053 0.67 0.999994
Target:  5'- uGUGCGAUUACGGUUUguGCaa-ACGCg -3'
miRNA:   3'- -CAUGCUAAUGUUAAAacCGccaUGCG- -5'
11305 3' -43.6 NC_003083.1 + 62727 0.67 0.999991
Target:  5'- -gGCGGUugacuaaucacUGCAuUUUUGGCGGgcCGa -3'
miRNA:   3'- caUGCUA-----------AUGUuAAAACCGCCauGCg -5'
11305 3' -43.6 NC_003083.1 + 96263 0.67 0.999987
Target:  5'- aGUACGuuugUGCuugucauuauGUUUgcGGCGGUGCGUu -3'
miRNA:   3'- -CAUGCua--AUGu---------UAAAa-CCGCCAUGCG- -5'
11305 3' -43.6 NC_003083.1 + 1304 0.69 0.999936
Target:  5'- gGUGCGAc--CAAUagUUGGCcGGUACGa -3'
miRNA:   3'- -CAUGCUaauGUUAa-AACCG-CCAUGCg -5'
11305 3' -43.6 NC_003083.1 + 43492 0.69 0.999915
Target:  5'- -cGCGc--ACGGcUUUGGCGGcACGCg -3'
miRNA:   3'- caUGCuaaUGUUaAAACCGCCaUGCG- -5'
11305 3' -43.6 NC_003083.1 + 108665 0.69 0.999805
Target:  5'- -gACGAgUACAAca--GGCGGguugACGCg -3'
miRNA:   3'- caUGCUaAUGUUaaaaCCGCCa---UGCG- -5'
11305 3' -43.6 NC_003083.1 + 102124 0.7 0.999585
Target:  5'- --uUGAUUACuGUUcgUGGCGccGUGCGCg -3'
miRNA:   3'- cauGCUAAUGuUAAa-ACCGC--CAUGCG- -5'
11305 3' -43.6 NC_003083.1 + 13106 0.73 0.996101
Target:  5'- -cGCGAUUACAAUcgc-GCGGcACGCu -3'
miRNA:   3'- caUGCUAAUGUUAaaacCGCCaUGCG- -5'
11305 3' -43.6 NC_003083.1 + 2103 0.76 0.966202
Target:  5'- uGUACGAUUugGagcGUUUUGuG-GGUGCGCa -3'
miRNA:   3'- -CAUGCUAAugU---UAAAAC-CgCCAUGCG- -5'
11305 3' -43.6 NC_003083.1 + 47472 1.15 0.019489
Target:  5'- aGUACGAUUACAAUUUUGGCGGUACGCu -3'
miRNA:   3'- -CAUGCUAAUGUUAAAACCGCCAUGCG- -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.