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
18002 3' -50.9 NC_004665.1 + 35495 0.66 0.859388
Target:  5'- cGUAUCCACG--GCCuu-CCAgcUCGCGGu -3'
miRNA:   3'- -CGUAGGUGUguUGGucuGGU--AGUGCC- -5'
18002 3' -50.9 NC_004665.1 + 22463 0.66 0.859388
Target:  5'- uCAUCUAuCAgGuCCAGACCuUCACGa -3'
miRNA:   3'- cGUAGGU-GUgUuGGUCUGGuAGUGCc -5'
18002 3' -50.9 NC_004665.1 + 12996 0.66 0.850586
Target:  5'- aGCGUCCAUGCAGCagcgugcuCCAU-ACGGa -3'
miRNA:   3'- -CGUAGGUGUGUUGgucu----GGUAgUGCC- -5'
18002 3' -50.9 NC_004665.1 + 14562 0.66 0.84153
Target:  5'- gGUGUCgGuCGCAACCAcGAUgGUCAuCGGg -3'
miRNA:   3'- -CGUAGgU-GUGUUGGU-CUGgUAGU-GCC- -5'
18002 3' -50.9 NC_004665.1 + 3326 0.66 0.84153
Target:  5'- cGCAUUCAaGCGACCGuGACUGUC-CGa -3'
miRNA:   3'- -CGUAGGUgUGUUGGU-CUGGUAGuGCc -5'
18002 3' -50.9 NC_004665.1 + 33278 0.66 0.840611
Target:  5'- uGCAUCCAcCACAACUGGuugucaguguucaGCCAgagCGCa- -3'
miRNA:   3'- -CGUAGGU-GUGUUGGUC-------------UGGUa--GUGcc -5'
18002 3' -50.9 NC_004665.1 + 1284 0.67 0.8227
Target:  5'- -gGUCC-CGauguuguCCaAGGCCAUCACGGa -3'
miRNA:   3'- cgUAGGuGUguu----GG-UCUGGUAGUGCC- -5'
18002 3' -50.9 NC_004665.1 + 7074 0.67 0.802986
Target:  5'- aGCAUCCucaGCGAUggacucaaGGACCGUCGCa- -3'
miRNA:   3'- -CGUAGGug-UGUUGg-------UCUGGUAGUGcc -5'
18002 3' -50.9 NC_004665.1 + 18455 0.67 0.802986
Target:  5'- aGCggUCACACGcucACCcGACCGUUgaACGGc -3'
miRNA:   3'- -CGuaGGUGUGU---UGGuCUGGUAG--UGCC- -5'
18002 3' -50.9 NC_004665.1 + 21716 0.68 0.771965
Target:  5'- gGUAUCuCGCaACAACCAGA-CAUCcuuCGGu -3'
miRNA:   3'- -CGUAG-GUG-UGUUGGUCUgGUAGu--GCC- -5'
18002 3' -50.9 NC_004665.1 + 27555 0.68 0.771965
Target:  5'- cGCcaagUCGC-CAACCGGGCC-UCugGGu -3'
miRNA:   3'- -CGua--GGUGuGUUGGUCUGGuAGugCC- -5'
18002 3' -50.9 NC_004665.1 + 24446 0.68 0.765577
Target:  5'- cGCAUCCGuugucccuuggucaGCGACUGGACCAcauuggucgUCACGa -3'
miRNA:   3'- -CGUAGGUg-------------UGUUGGUCUGGU---------AGUGCc -5'
18002 3' -50.9 NC_004665.1 + 32772 0.68 0.728436
Target:  5'- gGCcgCCACcauGCAAUCGGGCCugacaGUCAaCGGu -3'
miRNA:   3'- -CGuaGGUG---UGUUGGUCUGG-----UAGU-GCC- -5'
18002 3' -50.9 NC_004665.1 + 15188 0.68 0.728436
Target:  5'- aGCGUCCACACGucuucgccCCAGuCCAcuucuuccUCACuGGc -3'
miRNA:   3'- -CGUAGGUGUGUu-------GGUCuGGU--------AGUG-CC- -5'
18002 3' -50.9 NC_004665.1 + 12550 0.69 0.70598
Target:  5'- -gAUCCcguuguggaACACGAUgAGACCAUC-CGGc -3'
miRNA:   3'- cgUAGG---------UGUGUUGgUCUGGUAGuGCC- -5'
18002 3' -50.9 NC_004665.1 + 6175 0.7 0.660216
Target:  5'- uCGUCCugACugacugccgugaGGCuCAGAUCGUCAUGGa -3'
miRNA:   3'- cGUAGGugUG------------UUG-GUCUGGUAGUGCC- -5'
18002 3' -50.9 NC_004665.1 + 20540 0.7 0.660216
Target:  5'- aGCuUCgACAuCGACCAGAUCAgcaGCGGc -3'
miRNA:   3'- -CGuAGgUGU-GUUGGUCUGGUag-UGCC- -5'
18002 3' -50.9 NC_004665.1 + 21293 0.7 0.660216
Target:  5'- cCAgCCACGCGAUUGGACU-UCGCGGu -3'
miRNA:   3'- cGUaGGUGUGUUGGUCUGGuAGUGCC- -5'
18002 3' -50.9 NC_004665.1 + 4788 0.7 0.656755
Target:  5'- uGCAggUACugGACCAGAgCCGggaagcgcuugcccUCACGGg -3'
miRNA:   3'- -CGUagGUGugUUGGUCU-GGU--------------AGUGCC- -5'
18002 3' -50.9 NC_004665.1 + 2782 0.7 0.648671
Target:  5'- aGCAgguUCacaGCACGACCAccacGCuCAUCACGGa -3'
miRNA:   3'- -CGU---AGg--UGUGUUGGUc---UG-GUAGUGCC- -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.