miRNA display CGI


Results 1 - 20 of 85 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
28854 3' -63.9 NC_006146.1 + 92012 0.78 0.125062
Target:  5'- cCCGGUCCCCCccaGCCUgaggaacauuuaUGCGgagcugcaccggaguCUGCCGGAg -3'
miRNA:   3'- -GGCCAGGGGG---CGGA------------ACGC---------------GACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 70189 0.67 0.567439
Target:  5'- gCCGGUcccacacccaCCCCCGCa--GCGCcgggUGCCGaGGg -3'
miRNA:   3'- -GGCCA----------GGGGGCGgaaCGCG----ACGGC-CU- -5'
28854 3' -63.9 NC_006146.1 + 164307 0.66 0.586367
Target:  5'- gCCGGggCCaCUGCCgUUGCuGUUGUCGGGg -3'
miRNA:   3'- -GGCCagGG-GGCGG-AACG-CGACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 106672 0.66 0.624525
Target:  5'- cCCG--CCCCgGCCcagGCGCagaugugccuccUGCCGGAg -3'
miRNA:   3'- -GGCcaGGGGgCGGaa-CGCG------------ACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 167634 0.69 0.408291
Target:  5'- -gGGUCCCgCgggGCCcgGCGCgUGCCGGGg -3'
miRNA:   3'- ggCCAGGGgG---CGGaaCGCG-ACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 168566 0.69 0.408291
Target:  5'- -gGGUCCCgCgggGCCcgGCGCgUGCCGGGg -3'
miRNA:   3'- ggCCAGGGgG---CGGaaCGCG-ACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 170429 0.69 0.408291
Target:  5'- -gGGUCCCgCgggGCCcgGCGCgUGCCGGGg -3'
miRNA:   3'- ggCCAGGGgG---CGGaaCGCG-ACGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 143015 0.69 0.432959
Target:  5'- cCCGGUCCCCUcCgCUUGCG-UGCCa-- -3'
miRNA:   3'- -GGCCAGGGGGcG-GAACGCgACGGccu -5'
28854 3' -63.9 NC_006146.1 + 98666 0.69 0.458473
Target:  5'- cCUGGUCCCCgUGCCUUcacGCGCaGUgGGu -3'
miRNA:   3'- -GGCCAGGGG-GCGGAA---CGCGaCGgCCu -5'
28854 3' -63.9 NC_006146.1 + 58283 0.67 0.548669
Target:  5'- aCGGUCUgcugcuCCaCGCCcuucaUGCGCUucGCCGGGg -3'
miRNA:   3'- gGCCAGG------GG-GCGGa----ACGCGA--CGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 98398 0.67 0.539356
Target:  5'- uCCGcUCCUCCGCag-GCGCUGCagccaggcaCGGGg -3'
miRNA:   3'- -GGCcAGGGGGCGgaaCGCGACG---------GCCU- -5'
28854 3' -63.9 NC_006146.1 + 151762 0.69 0.458473
Target:  5'- gCUGG-CCCCgucaGCCUUGCGcCUGCCc-- -3'
miRNA:   3'- -GGCCaGGGGg---CGGAACGC-GACGGccu -5'
28854 3' -63.9 NC_006146.1 + 2416 0.74 0.228948
Target:  5'- cCCGGcCCCCCGaCCgugGaCGUgagGCCGGAu -3'
miRNA:   3'- -GGCCaGGGGGC-GGaa-C-GCGa--CGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 34152 0.67 0.546802
Target:  5'- cCCGGagCCCCGgCgaggguggggggUGCGCccccaGCCGGAc -3'
miRNA:   3'- -GGCCagGGGGCgGa-----------ACGCGa----CGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 131049 0.71 0.332735
Target:  5'- cCCGGgcacacagCCCCCGCCggcccacUGUGCgGCCGaGGc -3'
miRNA:   3'- -GGCCa-------GGGGGCGGa------ACGCGaCGGC-CU- -5'
28854 3' -63.9 NC_006146.1 + 44374 0.69 0.432959
Target:  5'- gCCaGaCCCCCGCCcgggggGCGUgugggGCCGGGc -3'
miRNA:   3'- -GGcCaGGGGGCGGaa----CGCGa----CGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 42670 0.67 0.548669
Target:  5'- gCGGcUCgCCCGCggUGgGCUGCCuGAg -3'
miRNA:   3'- gGCC-AGgGGGCGgaACgCGACGGcCU- -5'
28854 3' -63.9 NC_006146.1 + 134679 0.66 0.586367
Target:  5'- gCCuccUCCCCgGCCggcuUGCGCUcCCGGGg -3'
miRNA:   3'- -GGcc-AGGGGgCGGa---ACGCGAcGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 46977 0.7 0.376804
Target:  5'- cCCGG-CCgCCGCCaggaaUUGCGCccGUCGGAc -3'
miRNA:   3'- -GGCCaGGgGGCGG-----AACGCGa-CGGCCU- -5'
28854 3' -63.9 NC_006146.1 + 169498 0.69 0.408291
Target:  5'- -gGGUCCCgCgggGCCcgGCGCgUGCCGGGg -3'
miRNA:   3'- ggCCAGGGgG---CGGaaCGCG-ACGGCCU- -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.