miRNA display CGI


Results 1 - 20 of 21 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
5549 5' -57.3 NC_001806.1 + 72066 0.66 0.84262
Target:  5'- cGAGGUgGGcuucuUCGGG-GAGcCCGCGGCGg -3'
miRNA:   3'- -UUCCAaCC-----AGUCCaCUCcGGUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 103709 0.66 0.841804
Target:  5'- gGGGGuUUGGUCggcGGGUGguaacuggcGGGCCGCugacucgGGCGg -3'
miRNA:   3'- -UUCC-AACCAG---UCCAC---------UCCGGUG-------UCGC- -5'
5549 5' -57.3 NC_001806.1 + 86657 0.66 0.817333
Target:  5'- -cGGcc-GUCAGcccggcggccGUGAGGCCGCGGCa -3'
miRNA:   3'- uuCCaacCAGUC----------CACUCCGGUGUCGc -5'
5549 5' -57.3 NC_001806.1 + 3290 0.67 0.79961
Target:  5'- cGGGgcGcGUCGGcGUGcGGCgGCGGCGg -3'
miRNA:   3'- uUCCaaC-CAGUC-CACuCCGgUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 4815 0.67 0.790514
Target:  5'- aAAGGcgggGGUcCGGGgcggcGAGGCCGCGGgGu -3'
miRNA:   3'- -UUCCaa--CCA-GUCCa----CUCCGGUGUCgC- -5'
5549 5' -57.3 NC_001806.1 + 128565 0.67 0.781273
Target:  5'- cAGGgcgcGGUCGuagcGG-GAGGUCACGGCGc -3'
miRNA:   3'- uUCCaa--CCAGU----CCaCUCCGGUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 39903 0.67 0.771897
Target:  5'- --uGUUGGUgCcGGUGGGGCUACcGCGu -3'
miRNA:   3'- uucCAACCA-GuCCACUCCGGUGuCGC- -5'
5549 5' -57.3 NC_001806.1 + 93706 0.67 0.762395
Target:  5'- aGGGGUUGGg-GGGUGGGGgaacCUAgGGCGg -3'
miRNA:   3'- -UUCCAACCagUCCACUCC----GGUgUCGC- -5'
5549 5' -57.3 NC_001806.1 + 86045 0.67 0.762395
Target:  5'- cGGGGggGG-CGGGcucguccccUGGGGCgGCGGCGu -3'
miRNA:   3'- -UUCCaaCCaGUCC---------ACUCCGgUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 34385 0.67 0.752775
Target:  5'- cGAGGUgGGU-GGGUG-GGCgGCGGUGg -3'
miRNA:   3'- -UUCCAaCCAgUCCACuCCGgUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 143347 0.68 0.733222
Target:  5'- -uGGUUGGUCaaaaaagggAGGgacgGGGGCCggcagaccgACGGCGa -3'
miRNA:   3'- uuCCAACCAG---------UCCa---CUCCGG---------UGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 2612 0.68 0.70325
Target:  5'- cGGG-UGGUCc-GUGAgcucGGCCACGGCGc -3'
miRNA:   3'- uUCCaACCAGucCACU----CCGGUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 11822 0.68 0.693126
Target:  5'- gGAGGUggUGGUCgAGGgggugGAGGCCugGuuagggGCGg -3'
miRNA:   3'- -UUCCA--ACCAG-UCCa----CUCCGGugU------CGC- -5'
5549 5' -57.3 NC_001806.1 + 36704 0.69 0.662479
Target:  5'- cAGGUUGGUgAGG-GGGGUCGCuGUc -3'
miRNA:   3'- uUCCAACCAgUCCaCUCCGGUGuCGc -5'
5549 5' -57.3 NC_001806.1 + 151278 0.69 0.631608
Target:  5'- -cGGUgggGGcCGGGgccggGGGGCgGCGGCGg -3'
miRNA:   3'- uuCCAa--CCaGUCCa----CUCCGgUGUCGC- -5'
5549 5' -57.3 NC_001806.1 + 136200 0.7 0.611015
Target:  5'- -cGGUccccGGUCcacaAGG-GGGGCCACAGCa -3'
miRNA:   3'- uuCCAa---CCAG----UCCaCUCCGGUGUCGc -5'
5549 5' -57.3 NC_001806.1 + 95958 0.71 0.55994
Target:  5'- -cGGggGGcUCGGGUGcugauuGGGCCGuCAGCGa -3'
miRNA:   3'- uuCCaaCC-AGUCCAC------UCCGGU-GUCGC- -5'
5549 5' -57.3 NC_001806.1 + 146173 0.72 0.510119
Target:  5'- cGGGgaucggUGGUCAGGcagcccGGGCCGCGGCu -3'
miRNA:   3'- uUCCa-----ACCAGUCCac----UCCGGUGUCGc -5'
5549 5' -57.3 NC_001806.1 + 67231 0.73 0.434683
Target:  5'- -uGGUgGGcCAGGUGAGGCagguCGGCGg -3'
miRNA:   3'- uuCCAaCCaGUCCACUCCGgu--GUCGC- -5'
5549 5' -57.3 NC_001806.1 + 27837 0.73 0.425708
Target:  5'- cGGGUUGGUCcccGGGgacGGGGCCGCcccGCGg -3'
miRNA:   3'- uUCCAACCAG---UCCa--CUCCGGUGu--CGC- -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.