miRNA display CGI


Results 1 - 20 of 30 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
7336 3' -54.4 NC_001900.1 + 40831 0.66 0.753162
Target:  5'- -gUGgugGUUCacgGCGGCGCUcGCGGCg -3'
miRNA:   3'- gaACa--CGAGca-UGCCGUGGuUGCCGg -5'
7336 3' -54.4 NC_001900.1 + 1437 0.66 0.753162
Target:  5'- --aGUGCUgGUcgcggGCGGCgaccGCCAGCGcguugaacGCCg -3'
miRNA:   3'- gaaCACGAgCA-----UGCCG----UGGUUGC--------CGG- -5'
7336 3' -54.4 NC_001900.1 + 10265 0.66 0.753162
Target:  5'- uCUUGaucaggcgGCUCucUGCGGCcCUGAUGGCCu -3'
miRNA:   3'- -GAACa-------CGAGc-AUGCCGuGGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 21576 0.66 0.742653
Target:  5'- uCUUGUGgaUcUG-GGCugCGAUGGCCg -3'
miRNA:   3'- -GAACACgaGcAUgCCGugGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 33227 0.66 0.732029
Target:  5'- --cGUGaCgcuggCGUAcuuCGGCACCAgccACGGCg -3'
miRNA:   3'- gaaCAC-Ga----GCAU---GCCGUGGU---UGCCGg -5'
7336 3' -54.4 NC_001900.1 + 6636 0.66 0.732029
Target:  5'- ---cUGCgUGUGCGGguCgAACGGCUg -3'
miRNA:   3'- gaacACGaGCAUGCCguGgUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 25653 0.66 0.72775
Target:  5'- -aUGUGCUCGcggaucaUcgccgcgacgugagGCGGCACgGucacCGGCCg -3'
miRNA:   3'- gaACACGAGC-------A--------------UGCCGUGgUu---GCCGG- -5'
7336 3' -54.4 NC_001900.1 + 44797 0.66 0.722379
Target:  5'- ----cGCUCGgaucgacaaggugugGCaGCgGCCAGCGGCCu -3'
miRNA:   3'- gaacaCGAGCa--------------UGcCG-UGGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 43625 0.66 0.721302
Target:  5'- --cGU-CUCaUGCGGCGCguACGGCg -3'
miRNA:   3'- gaaCAcGAGcAUGCCGUGguUGCCGg -5'
7336 3' -54.4 NC_001900.1 + 7928 0.66 0.710485
Target:  5'- --cGUGUucuUCGUcUGGUccugGCUGACGGCCg -3'
miRNA:   3'- gaaCACG---AGCAuGCCG----UGGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 1237 0.67 0.69959
Target:  5'- -gUGUaCUCGgugGCGGCGgCAGCGGa- -3'
miRNA:   3'- gaACAcGAGCa--UGCCGUgGUUGCCgg -5'
7336 3' -54.4 NC_001900.1 + 45645 0.67 0.698496
Target:  5'- --cGUGgaCGUucuucuugccuucACGGCGCaCAcgcucACGGCCg -3'
miRNA:   3'- gaaCACgaGCA-------------UGCCGUG-GU-----UGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 27567 0.67 0.688627
Target:  5'- --gGUGCgcCGcUACauCGCCGACGGCCg -3'
miRNA:   3'- gaaCACGa-GC-AUGccGUGGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 46455 0.67 0.677609
Target:  5'- aCUgcgGUGCcUGcUACaaCGCCAGCGGCCa -3'
miRNA:   3'- -GAa--CACGaGC-AUGccGUGGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 31691 0.67 0.666547
Target:  5'- gCUUG-GCUCcgguCGGC-CCGAacCGGCCg -3'
miRNA:   3'- -GAACaCGAGcau-GCCGuGGUU--GCCGG- -5'
7336 3' -54.4 NC_001900.1 + 37215 0.67 0.655452
Target:  5'- aCUUGUGCagauagUCGaACGGC--CGGCGGUCg -3'
miRNA:   3'- -GAACACG------AGCaUGCCGugGUUGCCGG- -5'
7336 3' -54.4 NC_001900.1 + 1614 0.68 0.644335
Target:  5'- --gGUGCuUCGUGCGGUggACCAccuGC-GCCu -3'
miRNA:   3'- gaaCACG-AGCAUGCCG--UGGU---UGcCGG- -5'
7336 3' -54.4 NC_001900.1 + 755 0.68 0.644335
Target:  5'- ----cGCUgGUGCGGCGCguACuGGCa -3'
miRNA:   3'- gaacaCGAgCAUGCCGUGguUG-CCGg -5'
7336 3' -54.4 NC_001900.1 + 17411 0.68 0.633206
Target:  5'- --cGUGUUCG-ACGGUGCCAugcaAgGGCUu -3'
miRNA:   3'- gaaCACGAGCaUGCCGUGGU----UgCCGG- -5'
7336 3' -54.4 NC_001900.1 + 39441 0.68 0.633206
Target:  5'- --gGUGCgug-GC-GCACCGugGGCCg -3'
miRNA:   3'- gaaCACGagcaUGcCGUGGUugCCGG- -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.