miRNA display CGI


Results 1 - 20 of 56 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
12789 3' -59 NC_003387.1 + 48273 0.66 0.515415
Target:  5'- gGUCGgcuCGGCCUUcgGCGCgggCUCGGCGAAc -3'
miRNA:   3'- gCAGU---GCCGGGG--UGCG---GAGCUGCUUu -5'
12789 3' -59 NC_003387.1 + 48299 0.66 0.505183
Target:  5'- aGUUc--GCCgCC-CGCCUCGACGAAAu -3'
miRNA:   3'- gCAGugcCGG-GGuGCGGAGCUGCUUU- -5'
12789 3' -59 NC_003387.1 + 2832 0.66 0.505183
Target:  5'- uCGUCaACGGCCgCgACGCCgaCGACa--- -3'
miRNA:   3'- -GCAG-UGCCGG-GgUGCGGa-GCUGcuuu -5'
12789 3' -59 NC_003387.1 + 44622 0.66 0.52573
Target:  5'- cCGUgGCgcgagcguguGGCCCUggccGCgGCCUCGGCGAu- -3'
miRNA:   3'- -GCAgUG----------CCGGGG----UG-CGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 11481 0.66 0.495039
Target:  5'- -uUCAUGGCCgacaAUGCCUCGugGGc- -3'
miRNA:   3'- gcAGUGCCGGgg--UGCGGAGCugCUuu -5'
12789 3' -59 NC_003387.1 + 30974 0.66 0.484988
Target:  5'- gGUgGCGcugacGCCgaGCGCCUCGGCGAc- -3'
miRNA:   3'- gCAgUGC-----CGGggUGCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 10942 0.66 0.495039
Target:  5'- gGUCGCGGCa-CGCGCC-CGGCu--- -3'
miRNA:   3'- gCAGUGCCGggGUGCGGaGCUGcuuu -5'
12789 3' -59 NC_003387.1 + 11340 0.66 0.495039
Target:  5'- gGUCGCccggcgcucGGCCUCACGC-UCGGCGu-- -3'
miRNA:   3'- gCAGUG---------CCGGGGUGCGgAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 34130 0.66 0.515415
Target:  5'- aCGUCGCGGU---GCGCgaaCUCGACGAGc -3'
miRNA:   3'- -GCAGUGCCGgggUGCG---GAGCUGCUUu -5'
12789 3' -59 NC_003387.1 + 22457 0.66 0.515415
Target:  5'- gCGU--UGGCCUCGCGguaCUCGACGAc- -3'
miRNA:   3'- -GCAguGCCGGGGUGCg--GAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 22619 0.66 0.495039
Target:  5'- gGUCACuuGGCggCCCugGCCgcccgcCGACGAc- -3'
miRNA:   3'- gCAGUG--CCG--GGGugCGGa-----GCUGCUuu -5'
12789 3' -59 NC_003387.1 + 41568 0.66 0.495039
Target:  5'- uCGUCACGuuGCCCauagGCGCCUUGAUc--- -3'
miRNA:   3'- -GCAGUGC--CGGGg---UGCGGAGCUGcuuu -5'
12789 3' -59 NC_003387.1 + 22487 0.66 0.495039
Target:  5'- gCGUCguaccgggcgACGGCCUCggcgGCGCgCUCGACGu-- -3'
miRNA:   3'- -GCAG----------UGCCGGGG----UGCG-GAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 27790 0.66 0.505183
Target:  5'- ---gGCGGCCCCGcCGUCggucgCGGCGGu- -3'
miRNA:   3'- gcagUGCCGGGGU-GCGGa----GCUGCUuu -5'
12789 3' -59 NC_003387.1 + 6888 0.67 0.430647
Target:  5'- cCGUCGuggcacCGGCugccuagugcgcuauCgCCACGCCUUGACGggGg -3'
miRNA:   3'- -GCAGU------GCCG---------------G-GGUGCGGAGCUGCuuU- -5'
12789 3' -59 NC_003387.1 + 10667 0.67 0.417626
Target:  5'- uCGaCGCGGCUgcgaCCAcggcCGCCUCGGCGGu- -3'
miRNA:   3'- -GCaGUGCCGG----GGU----GCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 18590 0.67 0.455446
Target:  5'- gCGUCAgGGUCgCC-CGCCUCGGUGGc- -3'
miRNA:   3'- -GCAGUgCCGG-GGuGCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 23007 0.67 0.425038
Target:  5'- cCGUCGuCGGCCUgggcgccgccgaGCGCCUCGACc--- -3'
miRNA:   3'- -GCAGU-GCCGGGg-----------UGCGGAGCUGcuuu -5'
12789 3' -59 NC_003387.1 + 31423 0.67 0.445816
Target:  5'- gCGcCACuGCUCgACgGCCUCGACGAc- -3'
miRNA:   3'- -GCaGUGcCGGGgUG-CGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 34837 0.67 0.455446
Target:  5'- uCGUCgACGGCCCgCGCggGCCUUG-CGGu- -3'
miRNA:   3'- -GCAG-UGCCGGG-GUG--CGGAGCuGCUuu -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.