miRNA display CGI


Results 1 - 13 of 13 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
11916 3' -54.9 NC_003278.1 + 33620 0.66 0.604885
Target:  5'- aCGGagUGCCGGagUGGUUCUg---CGCCc -3'
miRNA:   3'- -GCCa-ACGGCCg-ACCAGGAacaaGUGG- -5'
11916 3' -54.9 NC_003278.1 + 16090 0.66 0.603754
Target:  5'- gGGUUGCCGGCggcGG-CCaucUGcugagccagugcuUUCACCc -3'
miRNA:   3'- gCCAACGGCCGa--CCaGGa--AC-------------AAGUGG- -5'
11916 3' -54.9 NC_003278.1 + 5471 0.67 0.559933
Target:  5'- aGGUUGUCGGCUGcGgCCUggcucUCGCg -3'
miRNA:   3'- gCCAACGGCCGAC-CaGGAaca--AGUGg -5'
11916 3' -54.9 NC_003278.1 + 5619 0.67 0.53779
Target:  5'- -cGUUGCCGGC-GGUCUUcUGgccggUCACg -3'
miRNA:   3'- gcCAACGGCCGaCCAGGA-ACa----AGUGg -5'
11916 3' -54.9 NC_003278.1 + 14136 0.67 0.52683
Target:  5'- uGGaUGCCGaGCUuGUCCUUGa--ACCa -3'
miRNA:   3'- gCCaACGGC-CGAcCAGGAACaagUGG- -5'
11916 3' -54.9 NC_003278.1 + 21637 0.68 0.515956
Target:  5'- cCGGggacGCCGGCgggGGUCUguugcCACCa -3'
miRNA:   3'- -GCCaa--CGGCCGa--CCAGGaacaaGUGG- -5'
11916 3' -54.9 NC_003278.1 + 33204 0.68 0.473437
Target:  5'- gCGGUUccGCCGGCUGcGgCCgaGgccaUCGCCg -3'
miRNA:   3'- -GCCAA--CGGCCGAC-CaGGaaCa---AGUGG- -5'
11916 3' -54.9 NC_003278.1 + 13217 0.69 0.442734
Target:  5'- aGGUUGCCGGC-GGUaCCgaGgaccgaGCCg -3'
miRNA:   3'- gCCAACGGCCGaCCA-GGaaCaag---UGG- -5'
11916 3' -54.9 NC_003278.1 + 3812 0.69 0.432751
Target:  5'- gCGGagGCCGGCcgGGUCCacGUcgaugcCACCa -3'
miRNA:   3'- -GCCaaCGGCCGa-CCAGGaaCAa-----GUGG- -5'
11916 3' -54.9 NC_003278.1 + 2812 0.7 0.394178
Target:  5'- aCGG-UGCCGGCUGGgCCg---UC-CCa -3'
miRNA:   3'- -GCCaACGGCCGACCaGGaacaAGuGG- -5'
11916 3' -54.9 NC_003278.1 + 11868 0.7 0.384888
Target:  5'- ---cUGaCCGGCUGGcugCCUUGggcaUCGCCg -3'
miRNA:   3'- gccaAC-GGCCGACCa--GGAACa---AGUGG- -5'
11916 3' -54.9 NC_003278.1 + 3307 0.73 0.256736
Target:  5'- uCGGcgGCCGGCUuGcCCUUGUugaagcgcUCGCCa -3'
miRNA:   3'- -GCCaaCGGCCGAcCaGGAACA--------AGUGG- -5'
11916 3' -54.9 NC_003278.1 + 29559 1.13 0.000357
Target:  5'- uCGGUUGCCGGCUGGUCCUUGUUCACCa -3'
miRNA:   3'- -GCCAACGGCCGACCAGGAACAAGUGG- -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.