miRNA display CGI


Results 1 - 20 of 66 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
17004 5' -52.6 NC_004333.2 + 16487 0.66 0.814393
Target:  5'- uCGAGCGUCGACGgucuauccaacacgGCGGaUGCGAAg- -3'
miRNA:   3'- -GCUCGCAGUUGCg-------------CGUCgACGUUUag -5'
17004 5' -52.6 NC_004333.2 + 763 0.66 0.810488
Target:  5'- gCGAGCG---GCGaUGUAGCUGCGAu-- -3'
miRNA:   3'- -GCUCGCaguUGC-GCGUCGACGUUuag -5'
17004 5' -52.6 NC_004333.2 + 3540 0.66 0.810488
Target:  5'- -aAGCGggaUCAACGCGguGCcgcGCAGcgCg -3'
miRNA:   3'- gcUCGC---AGUUGCGCguCGa--CGUUuaG- -5'
17004 5' -52.6 NC_004333.2 + 9352 0.66 0.800587
Target:  5'- --cGuCGUCGGCGCGCGGCgucggGCcu-UCu -3'
miRNA:   3'- gcuC-GCAGUUGCGCGUCGa----CGuuuAG- -5'
17004 5' -52.6 NC_004333.2 + 20933 0.66 0.790496
Target:  5'- aCGAGgCGUCGGCGCagGCAGaC-GCucGAUCa -3'
miRNA:   3'- -GCUC-GCAGUUGCG--CGUC-GaCGu-UUAG- -5'
17004 5' -52.6 NC_004333.2 + 19296 0.66 0.790496
Target:  5'- cCGAGCG-CGAuCGCGCGGCacgaGCGc--- -3'
miRNA:   3'- -GCUCGCaGUU-GCGCGUCGa---CGUuuag -5'
17004 5' -52.6 NC_004333.2 + 6045 0.66 0.790496
Target:  5'- uGAGCGUCAuguCGUGCAcCgGCAAc-- -3'
miRNA:   3'- gCUCGCAGUu--GCGCGUcGaCGUUuag -5'
17004 5' -52.6 NC_004333.2 + 4465 0.66 0.790496
Target:  5'- gCGAcGCGUCAGgugccaaccCGCGCAGUguuUGCAc--- -3'
miRNA:   3'- -GCU-CGCAGUU---------GCGCGUCG---ACGUuuag -5'
17004 5' -52.6 NC_004333.2 + 46674 0.66 0.780227
Target:  5'- cCGAcucGcCGUCGcuCGCGCAGUUcgaGCAAAUCu -3'
miRNA:   3'- -GCU---C-GCAGUu-GCGCGUCGA---CGUUUAG- -5'
17004 5' -52.6 NC_004333.2 + 45123 0.66 0.769791
Target:  5'- cCGGGCaucGUCAACgGCGgcCAGCUGCcguacGAUCu -3'
miRNA:   3'- -GCUCG---CAGUUG-CGC--GUCGACGu----UUAG- -5'
17004 5' -52.6 NC_004333.2 + 39129 0.67 0.759203
Target:  5'- -cGGCGUCGACGUGUc---GCAGGUCg -3'
miRNA:   3'- gcUCGCAGUUGCGCGucgaCGUUUAG- -5'
17004 5' -52.6 NC_004333.2 + 28205 0.67 0.748474
Target:  5'- uGAGgcCGaCAGCGCGCAGUcggGCAAAg- -3'
miRNA:   3'- gCUC--GCaGUUGCGCGUCGa--CGUUUag -5'
17004 5' -52.6 NC_004333.2 + 42309 0.67 0.748474
Target:  5'- cCGAgGCGUaucGCGUGCuGUUGCAGcgCg -3'
miRNA:   3'- -GCU-CGCAgu-UGCGCGuCGACGUUuaG- -5'
17004 5' -52.6 NC_004333.2 + 39257 0.67 0.748474
Target:  5'- cCGAGCGgccggCAggcgcACGCGCGcGCgaucGCAGGUUg -3'
miRNA:   3'- -GCUCGCa----GU-----UGCGCGU-CGa---CGUUUAG- -5'
17004 5' -52.6 NC_004333.2 + 1958 0.67 0.748474
Target:  5'- gCGGGCcgccuuGUCGAuuUGCuGCAGUUGCGAGUUc -3'
miRNA:   3'- -GCUCG------CAGUU--GCG-CGUCGACGUUUAG- -5'
17004 5' -52.6 NC_004333.2 + 27403 0.67 0.741975
Target:  5'- gGAGCGcaggcgugucgacguUCAgGCGCGCAGCcGC--GUCg -3'
miRNA:   3'- gCUCGC---------------AGU-UGCGCGUCGaCGuuUAG- -5'
17004 5' -52.6 NC_004333.2 + 8915 0.67 0.737617
Target:  5'- -uGGCGUCGAUGCGCGacGCgGCu--UCg -3'
miRNA:   3'- gcUCGCAGUUGCGCGU--CGaCGuuuAG- -5'
17004 5' -52.6 NC_004333.2 + 27664 0.67 0.726646
Target:  5'- gCGAGCGgcgCGGCG-GCGGCcgGCAGc-- -3'
miRNA:   3'- -GCUCGCa--GUUGCgCGUCGa-CGUUuag -5'
17004 5' -52.6 NC_004333.2 + 20642 0.67 0.726646
Target:  5'- gCGAGCGUCGcaACgGCGCuGCgccagugGCAGGa- -3'
miRNA:   3'- -GCUCGCAGU--UG-CGCGuCGa------CGUUUag -5'
17004 5' -52.6 NC_004333.2 + 22006 0.67 0.726646
Target:  5'- uCGGcGCGaaUCAGCGCGCGgGCguuuucucgacGCAGAUCa -3'
miRNA:   3'- -GCU-CGC--AGUUGCGCGU-CGa----------CGUUUAG- -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.