miRNA display CGI


Results 1 - 20 of 35 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
32091 5' -50.2 NC_007016.1 + 29889 1.09 0.009375
Target:  5'- gGGAAACCGCCGAUACCCAAACGUCAAu -3'
miRNA:   3'- -CCUUUGGCGGCUAUGGGUUUGCAGUU- -5'
32091 5' -50.2 NC_007016.1 + 123105 0.75 0.742825
Target:  5'- uGGGccAACgGCCGGUACCUggGCGUgAGa -3'
miRNA:   3'- -CCU--UUGgCGGCUAUGGGuuUGCAgUU- -5'
32091 5' -50.2 NC_007016.1 + 8791 0.73 0.829124
Target:  5'- cGGGAACCGUCGAUACuUCGcGgGUCAGc -3'
miRNA:   3'- -CCUUUGGCGGCUAUG-GGUuUgCAGUU- -5'
32091 5' -50.2 NC_007016.1 + 116332 0.72 0.854679
Target:  5'- gGGAGGCgCGCCGGUACgCCGcuuGCGUgAGu -3'
miRNA:   3'- -CCUUUG-GCGGCUAUG-GGUu--UGCAgUU- -5'
32091 5' -50.2 NC_007016.1 + 51080 0.72 0.870617
Target:  5'- cGGAcugGACCGCCG-UGCUCGGACG-CGg -3'
miRNA:   3'- -CCU---UUGGCGGCuAUGGGUUUGCaGUu -5'
32091 5' -50.2 NC_007016.1 + 125401 0.7 0.940445
Target:  5'- aGAGAgCGCUGGUugCCAucgcCGUCAAc -3'
miRNA:   3'- cCUUUgGCGGCUAugGGUuu--GCAGUU- -5'
32091 5' -50.2 NC_007016.1 + 73091 0.69 0.958032
Target:  5'- ----cCCGCgGGUACCCuggccGCGUCAAa -3'
miRNA:   3'- ccuuuGGCGgCUAUGGGuu---UGCAGUU- -5'
32091 5' -50.2 NC_007016.1 + 13703 0.69 0.961801
Target:  5'- uGGAAGCgGCuCGGUACCUcgGCG-CAc -3'
miRNA:   3'- -CCUUUGgCG-GCUAUGGGuuUGCaGUu -5'
32091 5' -50.2 NC_007016.1 + 115546 0.69 0.961801
Target:  5'- --uGACCGCCGGaugACCCcGGCGcCAAa -3'
miRNA:   3'- ccuUUGGCGGCUa--UGGGuUUGCaGUU- -5'
32091 5' -50.2 NC_007016.1 + 97847 0.69 0.961801
Target:  5'- aGGAAGCCGUuaucgCGuuaGCUCAAACGUCu- -3'
miRNA:   3'- -CCUUUGGCG-----GCua-UGGGUUUGCAGuu -5'
32091 5' -50.2 NC_007016.1 + 103880 0.68 0.96862
Target:  5'- uGGAAAaucgaCGgCGGUACCCGguaacuuugggAGCGUCAc -3'
miRNA:   3'- -CCUUUg----GCgGCUAUGGGU-----------UUGCAGUu -5'
32091 5' -50.2 NC_007016.1 + 38701 0.68 0.979577
Target:  5'- cGGGAGa-GCCGAUugCCGGA-GUCAu -3'
miRNA:   3'- -CCUUUggCGGCUAugGGUUUgCAGUu -5'
32091 5' -50.2 NC_007016.1 + 22920 0.68 0.979577
Target:  5'- aGGugGCCGCCG---UCCAGgcGCGUCAu -3'
miRNA:   3'- -CCuuUGGCGGCuauGGGUU--UGCAGUu -5'
32091 5' -50.2 NC_007016.1 + 16321 0.67 0.981804
Target:  5'- cGGAGACCGCCaccAUGCUgguuaaCGAGCuGUCGAu -3'
miRNA:   3'- -CCUUUGGCGGc--UAUGG------GUUUG-CAGUU- -5'
32091 5' -50.2 NC_007016.1 + 130101 0.67 0.985346
Target:  5'- cGGggGCCGCgCGGgagacccucgcCCCGGGCG-CAAg -3'
miRNA:   3'- -CCuuUGGCG-GCUau---------GGGUUUGCaGUU- -5'
32091 5' -50.2 NC_007016.1 + 90532 0.67 0.985705
Target:  5'- aGGGccuGCCGCUGAcagauaGCCUugcuGACGUCAAg -3'
miRNA:   3'- -CCUu--UGGCGGCUa-----UGGGu---UUGCAGUU- -5'
32091 5' -50.2 NC_007016.1 + 106472 0.67 0.985705
Target:  5'- cGGcu-CCGCCGc--CCCGAGCGUUg- -3'
miRNA:   3'- -CCuuuGGCGGCuauGGGUUUGCAGuu -5'
32091 5' -50.2 NC_007016.1 + 84780 0.67 0.985705
Target:  5'- aGGGAAUgGCUGAUAUCCAAAgcCGaCAGu -3'
miRNA:   3'- -CCUUUGgCGGCUAUGGGUUU--GCaGUU- -5'
32091 5' -50.2 NC_007016.1 + 91052 0.67 0.988932
Target:  5'- cGGAGACCGagGAcGCCC--GCGUCu- -3'
miRNA:   3'- -CCUUUGGCggCUaUGGGuuUGCAGuu -5'
32091 5' -50.2 NC_007016.1 + 6624 0.66 0.990316
Target:  5'- cGGAACCGCCGGaACCUuuAACGa--- -3'
miRNA:   3'- cCUUUGGCGGCUaUGGGu-UUGCaguu -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.