miRNA display CGI


Results 1 - 20 of 25 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
7178 3' -57.4 NC_001900.1 + 7861 0.66 0.554325
Target:  5'- gCACCAGCAGGU----GCUGggCGCGc -3'
miRNA:   3'- aGUGGUCGUCCGagucCGGCaaGUGC- -5'
7178 3' -57.4 NC_001900.1 + 41078 0.66 0.532908
Target:  5'- -gACguuGCGGGC-CAGGCCGgugaccUCGCGg -3'
miRNA:   3'- agUGgu-CGUCCGaGUCCGGCa-----AGUGC- -5'
7178 3' -57.4 NC_001900.1 + 4014 0.67 0.499295
Target:  5'- -aGCCAGgcaAGGaccgccugaccaUCuGGCCGUUCACGa -3'
miRNA:   3'- agUGGUCg--UCCg-----------AGuCCGGCAAGUGC- -5'
7178 3' -57.4 NC_001900.1 + 3532 0.67 0.491037
Target:  5'- aCGCCAucgacGCGGcGCUCGGGgCCGguaACGg -3'
miRNA:   3'- aGUGGU-----CGUC-CGAGUCC-GGCaagUGC- -5'
7178 3' -57.4 NC_001900.1 + 5208 0.67 0.470677
Target:  5'- gCACCAGUcGGCcCAgcccucgcgcuGGCCGUUCcCGa -3'
miRNA:   3'- aGUGGUCGuCCGaGU-----------CCGGCAAGuGC- -5'
7178 3' -57.4 NC_001900.1 + 10615 0.68 0.431305
Target:  5'- aCGCCugAGCAguaugcagcGGCcCAGGCCGUgaUCACu -3'
miRNA:   3'- aGUGG--UCGU---------CCGaGUCCGGCA--AGUGc -5'
7178 3' -57.4 NC_001900.1 + 31253 0.68 0.430346
Target:  5'- -aGCCAGCAGGUUgugcugcCAGGUCG-UCAgGa -3'
miRNA:   3'- agUGGUCGUCCGA-------GUCCGGCaAGUgC- -5'
7178 3' -57.4 NC_001900.1 + 34358 0.68 0.421767
Target:  5'- cCACCGGCAGcgagugcaGCuUCGGGgCGUUgGCGu -3'
miRNA:   3'- aGUGGUCGUC--------CG-AGUCCgGCAAgUGC- -5'
7178 3' -57.4 NC_001900.1 + 25480 0.68 0.421767
Target:  5'- cCGCCAGCGuGGCUCccacggcccggAGGUCGUggaUGCGg -3'
miRNA:   3'- aGUGGUCGU-CCGAG-----------UCCGGCAa--GUGC- -5'
7178 3' -57.4 NC_001900.1 + 25034 0.68 0.403076
Target:  5'- gCACCGagguuggcGCGGGCUUcGGCCGcgCugGu -3'
miRNA:   3'- aGUGGU--------CGUCCGAGuCCGGCaaGugC- -5'
7178 3' -57.4 NC_001900.1 + 48661 0.69 0.376045
Target:  5'- gCACaaucGCGGGCugUCGGGCUGUcgUCACGc -3'
miRNA:   3'- aGUGgu--CGUCCG--AGUCCGGCA--AGUGC- -5'
7178 3' -57.4 NC_001900.1 + 3078 0.69 0.36731
Target:  5'- -gACCGGCGGGa--AGGUCGUUgACGu -3'
miRNA:   3'- agUGGUCGUCCgagUCCGGCAAgUGC- -5'
7178 3' -57.4 NC_001900.1 + 15849 0.7 0.349427
Target:  5'- aCGCCAGCgucacggAGGCUCuGGUCGacCugGg -3'
miRNA:   3'- aGUGGUCG-------UCCGAGuCCGGCaaGugC- -5'
7178 3' -57.4 NC_001900.1 + 46134 0.7 0.310153
Target:  5'- aUCGCCgAGCuGGUcgaugacCAGGCCGUUgCGCGa -3'
miRNA:   3'- -AGUGG-UCGuCCGa------GUCCGGCAA-GUGC- -5'
7178 3' -57.4 NC_001900.1 + 9110 0.71 0.287814
Target:  5'- gCugCGGgauucggugucCGGGCUCAGGuUCGUUCGCGc -3'
miRNA:   3'- aGugGUC-----------GUCCGAGUCC-GGCAAGUGC- -5'
7178 3' -57.4 NC_001900.1 + 21583 0.71 0.26676
Target:  5'- aUCGCCgacGGCcGGCUCaAGGCCGU--GCGg -3'
miRNA:   3'- -AGUGG---UCGuCCGAG-UCCGGCAagUGC- -5'
7178 3' -57.4 NC_001900.1 + 38571 0.71 0.26676
Target:  5'- --cCCAGCAGGCcgAGGCCcaUCGCGg -3'
miRNA:   3'- aguGGUCGUCCGagUCCGGcaAGUGC- -5'
7178 3' -57.4 NC_001900.1 + 16775 0.72 0.253427
Target:  5'- gCGCgugaAGC-GGCUCGGGCCGUUCugcCGa -3'
miRNA:   3'- aGUGg---UCGuCCGAGUCCGGCAAGu--GC- -5'
7178 3' -57.4 NC_001900.1 + 27782 0.73 0.22249
Target:  5'- cCGcCCAGCGGGggCAGGUCGaUCGCGc -3'
miRNA:   3'- aGU-GGUCGUCCgaGUCCGGCaAGUGC- -5'
7178 3' -57.4 NC_001900.1 + 17245 0.73 0.211044
Target:  5'- gCACUGGCgaguucuucaccGGGCUCGGGCCGgUCAUc -3'
miRNA:   3'- aGUGGUCG------------UCCGAGUCCGGCaAGUGc -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.