miRNA display CGI


Results 1 - 20 of 142 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
29399 3' -56.9 NC_006151.1 + 2221 0.72 0.503685
Target:  5'- cACGGCGCCcccgGCGGCGGC-GCgGACGcUGg -3'
miRNA:   3'- -UGUCGCGGa---UGUCGCUGaCG-CUGC-AC- -5'
29399 3' -56.9 NC_006151.1 + 2289 0.67 0.810696
Target:  5'- -gGGCGCCcGCGGCGGC-GaCGGCGc- -3'
miRNA:   3'- ugUCGCGGaUGUCGCUGaC-GCUGCac -5'
29399 3' -56.9 NC_006151.1 + 3097 0.67 0.819408
Target:  5'- aGCAGCGCCgagaGGCcGCcGCGGCGc- -3'
miRNA:   3'- -UGUCGCGGaug-UCGcUGaCGCUGCac -5'
29399 3' -56.9 NC_006151.1 + 3263 0.72 0.533145
Target:  5'- -gGGCGCC-GCGGCGcGCgGCGAUGUGc -3'
miRNA:   3'- ugUCGCGGaUGUCGC-UGaCGCUGCAC- -5'
29399 3' -56.9 NC_006151.1 + 4083 0.71 0.573321
Target:  5'- aGCGGCGCCacggUGCgGGCGACgaggGCGACa-- -3'
miRNA:   3'- -UGUCGCGG----AUG-UCGCUGa---CGCUGcac -5'
29399 3' -56.9 NC_006151.1 + 5237 0.69 0.716061
Target:  5'- -gAGCGCCgcGCGGCGGCgGCGGgGg- -3'
miRNA:   3'- ugUCGCGGa-UGUCGCUGaCGCUgCac -5'
29399 3' -56.9 NC_006151.1 + 10200 0.76 0.315504
Target:  5'- cGCGGCGCggGCGGCGGCUGCagaGGCGg- -3'
miRNA:   3'- -UGUCGCGgaUGUCGCUGACG---CUGCac -5'
29399 3' -56.9 NC_006151.1 + 11691 0.66 0.844486
Target:  5'- gACGGgGCCgcgggACGGCGcgUGCGGCGc- -3'
miRNA:   3'- -UGUCgCGGa----UGUCGCugACGCUGCac -5'
29399 3' -56.9 NC_006151.1 + 15099 0.67 0.79279
Target:  5'- cGCGGCGCCU-CGG-GGC--CGACGUGa -3'
miRNA:   3'- -UGUCGCGGAuGUCgCUGacGCUGCAC- -5'
29399 3' -56.9 NC_006151.1 + 15293 0.69 0.716061
Target:  5'- cGCAGCGCgCUGC-GCGAgCUcaacgagcGCGACGUc -3'
miRNA:   3'- -UGUCGCG-GAUGuCGCU-GA--------CGCUGCAc -5'
29399 3' -56.9 NC_006151.1 + 15641 0.66 0.827949
Target:  5'- gACGGgGCCaGCgugGGCGAC-GaCGACGUGu -3'
miRNA:   3'- -UGUCgCGGaUG---UCGCUGaC-GCUGCAC- -5'
29399 3' -56.9 NC_006151.1 + 17885 0.69 0.682793
Target:  5'- uCAGCGCCgACAGCGagcagaugaccagcGCgGCGGCGcUGa -3'
miRNA:   3'- uGUCGCGGaUGUCGC--------------UGaCGCUGC-AC- -5'
29399 3' -56.9 NC_006151.1 + 17948 0.67 0.79279
Target:  5'- gGCGGCGUCUcCGGCGcccgcCUGcCGGCGUc -3'
miRNA:   3'- -UGUCGCGGAuGUCGCu----GAC-GCUGCAc -5'
29399 3' -56.9 NC_006151.1 + 20141 0.68 0.755301
Target:  5'- -gGGCGCC-GCGGgGGCgGCG-CGUGg -3'
miRNA:   3'- ugUCGCGGaUGUCgCUGaCGCuGCAC- -5'
29399 3' -56.9 NC_006151.1 + 20304 0.66 0.836311
Target:  5'- -gGGCGCCcGCcGUGGCguugGCGGCGg- -3'
miRNA:   3'- ugUCGCGGaUGuCGCUGa---CGCUGCac -5'
29399 3' -56.9 NC_006151.1 + 21000 0.68 0.76486
Target:  5'- gACGGCGCUgcCGGCGACgUGC-ACGcUGa -3'
miRNA:   3'- -UGUCGCGGauGUCGCUG-ACGcUGC-AC- -5'
29399 3' -56.9 NC_006151.1 + 21417 0.67 0.821989
Target:  5'- uGCGGCGUCUcgggccucgggggucGCGGCGuggggugGCccccgGCGGCGUGg -3'
miRNA:   3'- -UGUCGCGGA---------------UGUCGC-------UGa----CGCUGCAC- -5'
29399 3' -56.9 NC_006151.1 + 21978 0.66 0.850093
Target:  5'- uGCGGCGCCgGCAGCGcccaaagauCUGCcuggggucgcagucGGCGUa -3'
miRNA:   3'- -UGUCGCGGaUGUCGCu--------GACG--------------CUGCAc -5'
29399 3' -56.9 NC_006151.1 + 22335 0.67 0.783614
Target:  5'- cCAGCGCCgccaAUAGCG-CUGCGAg--- -3'
miRNA:   3'- uGUCGCGGa---UGUCGCuGACGCUgcac -5'
29399 3' -56.9 NC_006151.1 + 29067 0.67 0.819408
Target:  5'- gGCGGCGCCgcggGCcccgAGaCGGCcGCGGCGa- -3'
miRNA:   3'- -UGUCGCGGa---UG----UC-GCUGaCGCUGCac -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.