miRNA display CGI


Results 1 - 20 of 33 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
7002 3' -59.8 NC_001875.2 + 42444 0.66 0.71233
Target:  5'- aACgCCUGCGucagcGGCCGCUgcGGCGaGCCAc -3'
miRNA:   3'- -UGgGGAUGCu----CUGGCGG--UUGC-CGGUu -5'
7002 3' -59.8 NC_001875.2 + 72872 0.66 0.71233
Target:  5'- uCUCCgAUuGGGCgGCCAACGGCCu- -3'
miRNA:   3'- uGGGGaUGcUCUGgCGGUUGCCGGuu -5'
7002 3' -59.8 NC_001875.2 + 83023 0.66 0.711339
Target:  5'- gACCgCgcgcaGCGAGugCGCCAcgugaucGCGGCUg- -3'
miRNA:   3'- -UGGgGa----UGCUCugGCGGU-------UGCCGGuu -5'
7002 3' -59.8 NC_001875.2 + 102802 0.66 0.702385
Target:  5'- gACCgCUGCGAGuacgugcuGCuCGUCAAgGGCCGc -3'
miRNA:   3'- -UGGgGAUGCUC--------UG-GCGGUUgCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 48265 0.66 0.702385
Target:  5'- cGCCCCgcCGGGAcaccucauguguCCGCCG-CGuGCCAu -3'
miRNA:   3'- -UGGGGauGCUCU------------GGCGGUuGC-CGGUu -5'
7002 3' -59.8 NC_001875.2 + 17830 0.66 0.669198
Target:  5'- gGCCgCCaugcGCGAGGgCGCCGAaaacgaggugcaguCGGCCGAg -3'
miRNA:   3'- -UGG-GGa---UGCUCUgGCGGUU--------------GCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 48898 0.66 0.662107
Target:  5'- cGCCCCcGCGAcGACCGagaCGACGGaCUu- -3'
miRNA:   3'- -UGGGGaUGCU-CUGGCg--GUUGCC-GGuu -5'
7002 3' -59.8 NC_001875.2 + 65427 0.67 0.651956
Target:  5'- uACCUCguccgGCGuGcACCGCUGGCGGUCGGu -3'
miRNA:   3'- -UGGGGa----UGCuC-UGGCGGUUGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 129338 0.67 0.651956
Target:  5'- gACaaCUACGcGGCCGCaUGACGGCCGu -3'
miRNA:   3'- -UGggGAUGCuCUGGCG-GUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 81288 0.67 0.651956
Target:  5'- uGCCCCgcaaaagacACGcGcGCCGCCGGCGGCg-- -3'
miRNA:   3'- -UGGGGa--------UGCuC-UGGCGGUUGCCGguu -5'
7002 3' -59.8 NC_001875.2 + 34701 0.67 0.651956
Target:  5'- cGCCCCaACGGGuuCGCCAua-GCCGAg -3'
miRNA:   3'- -UGGGGaUGCUCugGCGGUugcCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 100897 0.67 0.64179
Target:  5'- gGCgCCaugGCGAGACC-UguGCGGCCAAa -3'
miRNA:   3'- -UGgGGa--UGCUCUGGcGguUGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 77266 0.67 0.64179
Target:  5'- cGCCgCCggGCGAagcGGCCGCCG-CGGCgCAGu -3'
miRNA:   3'- -UGG-GGa-UGCU---CUGGCGGUuGCCG-GUU- -5'
7002 3' -59.8 NC_001875.2 + 108079 0.67 0.621443
Target:  5'- uGCgCUCUGCGGGcugcACCGCacucACGGCCAu -3'
miRNA:   3'- -UG-GGGAUGCUC----UGGCGgu--UGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 96924 0.67 0.611278
Target:  5'- aGCCCUguuguUugGcGACCG-CGGCGGCCAc -3'
miRNA:   3'- -UGGGG-----AugCuCUGGCgGUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 101578 0.68 0.580904
Target:  5'- aACCCgUuggcCGGGACUGUCGACcuGGCCAGc -3'
miRNA:   3'- -UGGGgAu---GCUCUGGCGGUUG--CCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 108651 0.68 0.580904
Target:  5'- aGCUaCUGCa--ACCGCCAACGGCCGu -3'
miRNA:   3'- -UGGgGAUGcucUGGCGGUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 78378 0.68 0.570843
Target:  5'- gGCUCCUGCGGGuACUGCU--UGGUCAAa -3'
miRNA:   3'- -UGGGGAUGCUC-UGGCGGuuGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 68394 0.68 0.560824
Target:  5'- cGCCUC-GCGGcuGGCCGCCGAC-GCCGAa -3'
miRNA:   3'- -UGGGGaUGCU--CUGGCGGUUGcCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 122010 0.68 0.550855
Target:  5'- uGCCCCUACGGccucgcccGuuuuuuauagcaGCCGCCGAUGGCg-- -3'
miRNA:   3'- -UGGGGAUGCU--------C------------UGGCGGUUGCCGguu -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.