miRNA display CGI


Results 1 - 20 of 54 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
13457 3' -42.5 NC_003409.1 + 108639 0.66 1
Target:  5'- -cCGGCcaGGCCCaGGAGACCAuaUCAc -3'
miRNA:   3'- gaGUUG--UCGGG-CUUUUGGU--AGU- -5'
13457 3' -42.5 NC_003409.1 + 22568 0.66 1
Target:  5'- -cCAGCGGUCCugccACCAUCAu -3'
miRNA:   3'- gaGUUGUCGGGcuuuUGGUAGU- -5'
13457 3' -42.5 NC_003409.1 + 79415 0.66 1
Target:  5'- -gCGACAGCgCCG-AGACgAUCGc -3'
miRNA:   3'- gaGUUGUCG-GGCuUUUGgUAGU- -5'
13457 3' -42.5 NC_003409.1 + 121186 0.66 1
Target:  5'- --aAAgGGUCCGAAAACCA-CAa -3'
miRNA:   3'- gagUUgUCGGGCUUUUGGUaGU- -5'
13457 3' -42.5 NC_003409.1 + 52552 0.66 1
Target:  5'- --aAACAGCCCGAugugcaaaAGACaGUCAg -3'
miRNA:   3'- gagUUGUCGGGCU--------UUUGgUAGU- -5'
13457 3' -42.5 NC_003409.1 + 27415 0.66 1
Target:  5'- -gCAACAGUCUaaaGAAAACCGUa- -3'
miRNA:   3'- gaGUUGUCGGG---CUUUUGGUAgu -5'
13457 3' -42.5 NC_003409.1 + 21129 0.66 1
Target:  5'- cCUCAACucgcaguGCUCGGAGACCu--- -3'
miRNA:   3'- -GAGUUGu------CGGGCUUUUGGuagu -5'
13457 3' -42.5 NC_003409.1 + 95609 0.66 1
Target:  5'- -cCAGCGGCCCaaaGGGACCAa-- -3'
miRNA:   3'- gaGUUGUCGGGc--UUUUGGUagu -5'
13457 3' -42.5 NC_003409.1 + 90169 0.66 1
Target:  5'- -gCGGCAGUCC-AGcACCAUCAu -3'
miRNA:   3'- gaGUUGUCGGGcUUuUGGUAGU- -5'
13457 3' -42.5 NC_003409.1 + 87544 0.66 0.999999
Target:  5'- -cCAGCGcccccgcGCCCGGguaugcgAAACCAUCAu -3'
miRNA:   3'- gaGUUGU-------CGGGCU-------UUUGGUAGU- -5'
13457 3' -42.5 NC_003409.1 + 11943 0.66 0.999999
Target:  5'- -gCAGCGcuGCCUGAAAACguUCAc -3'
miRNA:   3'- gaGUUGU--CGGGCUUUUGguAGU- -5'
13457 3' -42.5 NC_003409.1 + 134497 0.66 0.999999
Target:  5'- uCUCGGCAGCCUGAcuACa---- -3'
miRNA:   3'- -GAGUUGUCGGGCUuuUGguagu -5'
13457 3' -42.5 NC_003409.1 + 49432 0.66 0.999999
Target:  5'- aUCuACAGCCCccccauAGCCAUCc -3'
miRNA:   3'- gAGuUGUCGGGcuu---UUGGUAGu -5'
13457 3' -42.5 NC_003409.1 + 28873 0.66 0.999999
Target:  5'- aUCGGCGGCaccaaUGAAAACCAg-- -3'
miRNA:   3'- gAGUUGUCGg----GCUUUUGGUagu -5'
13457 3' -42.5 NC_003409.1 + 68646 0.66 0.999999
Target:  5'- ---uACAGCCCuGGAAccgagGCCAUCGc -3'
miRNA:   3'- gaguUGUCGGG-CUUU-----UGGUAGU- -5'
13457 3' -42.5 NC_003409.1 + 84533 0.67 0.999998
Target:  5'- -aCGACGGCagagggucaGGAGGCCGUCAu -3'
miRNA:   3'- gaGUUGUCGgg-------CUUUUGGUAGU- -5'
13457 3' -42.5 NC_003409.1 + 111733 0.67 0.999998
Target:  5'- gUUAGCAGUCCGggGuCCAc-- -3'
miRNA:   3'- gAGUUGUCGGGCuuUuGGUagu -5'
13457 3' -42.5 NC_003409.1 + 78292 0.67 0.999998
Target:  5'- ---cGCAGCCCGguAGCCG-CAu -3'
miRNA:   3'- gaguUGUCGGGCuuUUGGUaGU- -5'
13457 3' -42.5 NC_003409.1 + 58661 0.67 0.999998
Target:  5'- cCUC-ACAGCCCGuagacguggacggGGAACCGcUCGa -3'
miRNA:   3'- -GAGuUGUCGGGC-------------UUUUGGU-AGU- -5'
13457 3' -42.5 NC_003409.1 + 51924 0.67 0.999998
Target:  5'- gCUCGA-GGCuCCGGGAACCGUg- -3'
miRNA:   3'- -GAGUUgUCG-GGCUUUUGGUAgu -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.