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 + 51248 0.74 0.150278
Target:  5'- aCGUCGacgcccUGGCCCUcgACGaCCUCGACGAGGa -3'
miRNA:   3'- -GCAGU------GCCGGGG--UGC-GGAGCUGCUUU- -5'
12789 3' -59 NC_003387.1 + 37416 0.67 0.454478
Target:  5'- aCGUCGCGauggcgaccaagaGCCCCAaGCCgcCGACGGu- -3'
miRNA:   3'- -GCAGUGC-------------CGGGGUgCGGa-GCUGCUuu -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 + 44622 0.66 0.52573
Target:  5'- cCGUgGCgcgagcguguGGCCCUggccGCgGCCUCGGCGAu- -3'
miRNA:   3'- -GCAgUG----------CCGGGG----UG-CGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 8326 0.7 0.280157
Target:  5'- --cUACGGCCCgGcCGaCCUCGACGAc- -3'
miRNA:   3'- gcaGUGCCGGGgU-GC-GGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 3362 0.7 0.301549
Target:  5'- uCGUCgACGGCaucaCCAagcugGCCUCGGCGGGc -3'
miRNA:   3'- -GCAG-UGCCGg---GGUg----CGGAGCUGCUUu -5'
12789 3' -59 NC_003387.1 + 40367 0.68 0.364645
Target:  5'- -aUCGCGGCCggggCCAaggGCCUCGACGu-- -3'
miRNA:   3'- gcAGUGCCGG----GGUg--CGGAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 19822 0.68 0.372291
Target:  5'- uGUC-CGGCaCCCGCGggucgaaucaaucUCUCGACGAc- -3'
miRNA:   3'- gCAGuGCCG-GGGUGC-------------GGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 1284 0.68 0.408473
Target:  5'- -uUCACGGUgaUGCGCCUCGACGc-- -3'
miRNA:   3'- gcAGUGCCGggGUGCGGAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 18174 0.67 0.435355
Target:  5'- aCGUCGacccgcugacgauCGGCUgCgagguGCGCCUCGGCGAc- -3'
miRNA:   3'- -GCAGU-------------GCCGGgG-----UGCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 50414 0.68 0.408473
Target:  5'- aCGUCggGCGGCagaUCGuCGCCUCGGCGu-- -3'
miRNA:   3'- -GCAG--UGCCGg--GGU-GCGGAGCUGCuuu -5'
12789 3' -59 NC_003387.1 + 21710 0.68 0.407565
Target:  5'- aG-CGCGG-CCCGCGCCgaccuggUCGugGAAAu -3'
miRNA:   3'- gCaGUGCCgGGGUGCGG-------AGCugCUUU- -5'
12789 3' -59 NC_003387.1 + 49822 0.73 0.196046
Target:  5'- --cCGCGGCCugCCGCGCC-CGGCGAGc -3'
miRNA:   3'- gcaGUGCCGG--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 + 48070 0.71 0.247213
Target:  5'- --cCGC-GCCCCgaaGCGCCUCGACGGGu -3'
miRNA:   3'- gcaGUGcCGGGG---UGCGGAGCUGCUUu -5'
12789 3' -59 NC_003387.1 + 22220 0.68 0.399447
Target:  5'- -cUCGCGGCCCCG-GCCcCGGCa--- -3'
miRNA:   3'- gcAGUGCCGGGGUgCGGaGCUGcuuu -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 + 37842 0.67 0.456416
Target:  5'- gGUCG-GGCaCCCcugcgcccggcggcuCGCCUCGACGAu- -3'
miRNA:   3'- gCAGUgCCG-GGGu--------------GCGGAGCUGCUuu -5'
12789 3' -59 NC_003387.1 + 10757 0.71 0.257392
Target:  5'- --aCACGGCCgCGaucgccgguacgaGCCUCGACGAAAu -3'
miRNA:   3'- gcaGUGCCGGgGUg------------CGGAGCUGCUUU- -5'
12789 3' -59 NC_003387.1 + 30286 0.7 0.301549
Target:  5'- aCGcCGCGG-CCCGCGCCUgGgACGAc- -3'
miRNA:   3'- -GCaGUGCCgGGGUGCGGAgC-UGCUuu -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.