miRNA display CGI


Results 1 - 20 of 21 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
17084 3' -52.3 NC_004333.2 + 19813 0.66 0.843887
Target:  5'- ---cGCGUCguugacggcagCGG-CGCCGUCUUGcACg -3'
miRNA:   3'- cguuCGCAGa----------GCUaGCGGCAGAAC-UG- -5'
17084 3' -52.3 NC_004333.2 + 3678 0.66 0.838499
Target:  5'- cGCAGGCGcCcgacugggcgaauaCGAUCGCCG-CgaugUGGCg -3'
miRNA:   3'- -CGUUCGCaGa-------------GCUAGCGGCaGa---ACUG- -5'
17084 3' -52.3 NC_004333.2 + 25184 0.66 0.834861
Target:  5'- cGCc-GCGUCUCGAacUCGCUG-CgcGACu -3'
miRNA:   3'- -CGuuCGCAGAGCU--AGCGGCaGaaCUG- -5'
17084 3' -52.3 NC_004333.2 + 29397 0.66 0.834861
Target:  5'- aGCAaacGGCGUaaCGccguUCGCCGUCgcGGCg -3'
miRNA:   3'- -CGU---UCGCAgaGCu---AGCGGCAGaaCUG- -5'
17084 3' -52.3 NC_004333.2 + 30368 0.66 0.834861
Target:  5'- cGCAGGCG-CgacggCGGccagcUCGCCGUCgaaacucGACg -3'
miRNA:   3'- -CGUUCGCaGa----GCU-----AGCGGCAGaa-----CUG- -5'
17084 3' -52.3 NC_004333.2 + 21650 0.66 0.825609
Target:  5'- gGCGGGCGUCgCGuaagcGUUGCUGUCcagaUGGCc -3'
miRNA:   3'- -CGUUCGCAGaGC-----UAGCGGCAGa---ACUG- -5'
17084 3' -52.3 NC_004333.2 + 20641 0.66 0.825609
Target:  5'- cGCGAGCGUCgcaaCGG-CGCUG-CgccagUGGCa -3'
miRNA:   3'- -CGUUCGCAGa---GCUaGCGGCaGa----ACUG- -5'
17084 3' -52.3 NC_004333.2 + 25761 0.66 0.825609
Target:  5'- cGCGGGCGUUcaggcugaUCaGGUCGCCGcguUCgcGACg -3'
miRNA:   3'- -CGUUCGCAG--------AG-CUAGCGGC---AGaaCUG- -5'
17084 3' -52.3 NC_004333.2 + 38374 0.67 0.806472
Target:  5'- cGCugucGCGUgUCGGgugCGCCGgcgUGACg -3'
miRNA:   3'- -CGuu--CGCAgAGCUa--GCGGCagaACUG- -5'
17084 3' -52.3 NC_004333.2 + 47027 0.67 0.796609
Target:  5'- uGCuuGuCGUCggCGcgCGCCGcCUUGGCu -3'
miRNA:   3'- -CGuuC-GCAGa-GCuaGCGGCaGAACUG- -5'
17084 3' -52.3 NC_004333.2 + 2107 0.67 0.796609
Target:  5'- cGCGGGCGUCgacgUGAUCGaugCGgccgUGACg -3'
miRNA:   3'- -CGUUCGCAGa---GCUAGCg--GCaga-ACUG- -5'
17084 3' -52.3 NC_004333.2 + 17458 0.67 0.786564
Target:  5'- cGCGAGCaG-CUCGAUgCGCUG-CUcGACg -3'
miRNA:   3'- -CGUUCG-CaGAGCUA-GCGGCaGAaCUG- -5'
17084 3' -52.3 NC_004333.2 + 32226 0.67 0.786564
Target:  5'- cCGAGCGUCUUGAgcUCGCgGauaUCggUUGGCa -3'
miRNA:   3'- cGUUCGCAGAGCU--AGCGgC---AG--AACUG- -5'
17084 3' -52.3 NC_004333.2 + 3080 0.67 0.786564
Target:  5'- aGUAAGCGUCggCGAucuUCGCC-UCguucGACa -3'
miRNA:   3'- -CGUUCGCAGa-GCU---AGCGGcAGaa--CUG- -5'
17084 3' -52.3 NC_004333.2 + 25228 0.67 0.77635
Target:  5'- gGCGAGCGUgUCGAUCGgaGgcaucgGGCa -3'
miRNA:   3'- -CGUUCGCAgAGCUAGCggCagaa--CUG- -5'
17084 3' -52.3 NC_004333.2 + 22344 0.69 0.690007
Target:  5'- gGUcGGCGUCUCGG--GCUGgCUUGGCg -3'
miRNA:   3'- -CGuUCGCAGAGCUagCGGCaGAACUG- -5'
17084 3' -52.3 NC_004333.2 + 41368 0.69 0.688891
Target:  5'- gGCGAGCucgGcCUCGucgaaGUCGCCGcccuucgUCUUGACg -3'
miRNA:   3'- -CGUUCG---CaGAGC-----UAGCGGC-------AGAACUG- -5'
17084 3' -52.3 NC_004333.2 + 13482 0.69 0.678821
Target:  5'- cGCAGGCG-UUCGAUC-UCGUCaUUGAUc -3'
miRNA:   3'- -CGUUCGCaGAGCUAGcGGCAG-AACUG- -5'
17084 3' -52.3 NC_004333.2 + 31266 0.69 0.678821
Target:  5'- gGCAaaugucGGCGUUgUCGAguacggcgCGCCGUCUgGGCg -3'
miRNA:   3'- -CGU------UCGCAG-AGCUa-------GCGGCAGAaCUG- -5'
17084 3' -52.3 NC_004333.2 + 41747 0.69 0.65632
Target:  5'- cGCGGGCGaCUCGcgCGCCGggCUaUGGg -3'
miRNA:   3'- -CGUUCGCaGAGCuaGCGGCa-GA-ACUg -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.