miRNA display CGI


Results 1 - 16 of 16 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
26104 3' -52.3 NC_005342.2 + 28216 0.66 0.842864
Target:  5'- ---cGCGUCguugacggcagCGG-CGCCGUCUUGcACg -3'
miRNA:   3'- cguuCGCAGa----------GCUaGCGGCAGAAC-UG- -5'
26104 3' -52.3 NC_005342.2 + 44373 0.66 0.837458
Target:  5'- cGCAGGCGcCcgacugggcgaauaCGAUCGCCG-CgaugUGGCg -3'
miRNA:   3'- -CGUUCGCaGa-------------GCUAGCGGCaGa---ACUG- -5'
26104 3' -52.3 NC_005342.2 + 20637 0.66 0.824528
Target:  5'- cGCGAGCGUCgcaaCGG-CGCUG-CgccagUGGCa -3'
miRNA:   3'- -CGUUCGCAGa---GCUaGCGGCaGa----ACUG- -5'
26104 3' -52.3 NC_005342.2 + 26379 0.66 0.824528
Target:  5'- gGCGGGCGUCgCGuaagcGUUGCUGUCcagaUGGCc -3'
miRNA:   3'- -CGUUCGCAGaGC-----UAGCGGCAGa---ACUG- -5'
26104 3' -52.3 NC_005342.2 + 38087 0.67 0.805338
Target:  5'- cGCugucGCGUgUCGGgugCGCCGgcgUGACg -3'
miRNA:   3'- -CGuu--CGCAgAGCUa--GCGGCagaACUG- -5'
26104 3' -52.3 NC_005342.2 + 1282 0.67 0.79545
Target:  5'- uGCuuGuCGUCggCGcgCGCCGcCUUGGCu -3'
miRNA:   3'- -CGuuC-GCAGa-GCuaGCGGCaGAACUG- -5'
26104 3' -52.3 NC_005342.2 + 3054 0.67 0.785382
Target:  5'- aGUAAGCGUCggCGAucuUCGCC-UCguucGACa -3'
miRNA:   3'- -CGUUCGCAGa-GCU---AGCGGcAGaa--CUG- -5'
26104 3' -52.3 NC_005342.2 + 31940 0.67 0.785382
Target:  5'- cCGAGCGUCUUGAgcUCGCgGauaUCggUUGGCa -3'
miRNA:   3'- cGUUCGCAGAGCU--AGCGgC---AG--AACUG- -5'
26104 3' -52.3 NC_005342.2 + 45944 0.67 0.764753
Target:  5'- cGCGGGCGUCgaugUGAUCGaCgCGgccgUGACg -3'
miRNA:   3'- -CGUUCGCAGa---GCUAGC-G-GCaga-ACUG- -5'
26104 3' -52.3 NC_005342.2 + 25685 0.69 0.688672
Target:  5'- gGUcGGCGUCUCGG--GCUGgCUUGGCg -3'
miRNA:   3'- -CGuUCGCAGAGCUagCGGCaGAACUG- -5'
26104 3' -52.3 NC_005342.2 + 6944 0.69 0.687555
Target:  5'- gGCGAGCucgGcCUCGucgaaGUCGCCGcccuucgUCUUGACg -3'
miRNA:   3'- -CGUUCG---CaGAGC-----UAGCGGC-------AGAACUG- -5'
26104 3' -52.3 NC_005342.2 + 13456 0.69 0.677476
Target:  5'- cGCAGGCG-UUCGAUC-UCGUCaUUGAUc -3'
miRNA:   3'- -CGUUCGCaGAGCUAGcGGCAG-AACUG- -5'
26104 3' -52.3 NC_005342.2 + 41460 0.69 0.65496
Target:  5'- cGCGGGCGaCUCGcgCGCCGggCUaUGGg -3'
miRNA:   3'- -CGUUCGCaGAGCuaGCGGCa-GA-ACUg -5'
26104 3' -52.3 NC_005342.2 + 22268 0.69 0.643662
Target:  5'- cGCGGGCGUUcaggcggaUCaGGUCGCCGcCUUcgcGACg -3'
miRNA:   3'- -CGUUCGCAG--------AG-CUAGCGGCaGAA---CUG- -5'
26104 3' -52.3 NC_005342.2 + 9409 0.72 0.510078
Target:  5'- cGCAcGcCGUC-CGGuUCGCCGUCUUGcGCg -3'
miRNA:   3'- -CGUuC-GCAGaGCU-AGCGGCAGAAC-UG- -5'
26104 3' -52.3 NC_005342.2 + 9824 1.11 0.001306
Target:  5'- gGCAAGCGUCUCGAUCGCCGUCUUGACc -3'
miRNA:   3'- -CGUUCGCAGAGCUAGCGGCAGAACUG- -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.