miRNA display CGI


Results 1 - 20 of 27 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
12869 3' -49.8 NC_003387.1 + 39158 0.66 0.956822
Target:  5'- cGCCgAGGgcguguACUGGUCGGugcgcgacauUCGcgUGCa -3'
miRNA:   3'- -CGGgUCC------UGACCAGCUuuu-------AGCa-ACG- -5'
12869 3' -49.8 NC_003387.1 + 35776 0.66 0.948803
Target:  5'- aGCaCCGGGAUcaGGUacCGAAcGUCGUaGCg -3'
miRNA:   3'- -CG-GGUCCUGa-CCA--GCUUuUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 34435 0.66 0.948803
Target:  5'- cGgCCGGGucggcGCUGGUCGAGuagUGcgGCg -3'
miRNA:   3'- -CgGGUCC-----UGACCAGCUUuuaGCaaCG- -5'
12869 3' -49.8 NC_003387.1 + 52419 0.66 0.948803
Target:  5'- gGCUCGGGcuccaccgGCUcGGUCGu-GAUCGU-GCa -3'
miRNA:   3'- -CGGGUCC--------UGA-CCAGCuuUUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 38748 0.66 0.943947
Target:  5'- -aCUuGGGCgGGUCGAgccagAAAUCGUcgUGCa -3'
miRNA:   3'- cgGGuCCUGaCCAGCU-----UUUAGCA--ACG- -5'
12869 3' -49.8 NC_003387.1 + 14318 0.66 0.943947
Target:  5'- cGCUCGGGG-UGGUUGucGAGGUCGaggucgUGCa -3'
miRNA:   3'- -CGGGUCCUgACCAGC--UUUUAGCa-----ACG- -5'
12869 3' -49.8 NC_003387.1 + 36594 0.66 0.938799
Target:  5'- uGCCCAGcaGCUuGcCGAAAAgCGUUGCc -3'
miRNA:   3'- -CGGGUCc-UGAcCaGCUUUUaGCAACG- -5'
12869 3' -49.8 NC_003387.1 + 12193 0.67 0.927621
Target:  5'- cGCCCucGGGCaGGUCGcuGcUCGgUGCc -3'
miRNA:   3'- -CGGGu-CCUGaCCAGCuuUuAGCaACG- -5'
12869 3' -49.8 NC_003387.1 + 30008 0.67 0.927621
Target:  5'- cGCCC--GACUGGUCGGu-AUCGcccagGCc -3'
miRNA:   3'- -CGGGucCUGACCAGCUuuUAGCaa---CG- -5'
12869 3' -49.8 NC_003387.1 + 35583 0.67 0.921588
Target:  5'- cGCCCuGGccgaGCUGGUCGAcacagcGAUCGccuacgGCc -3'
miRNA:   3'- -CGGGuCC----UGACCAGCUu-----UUAGCaa----CG- -5'
12869 3' -49.8 NC_003387.1 + 6859 0.68 0.904522
Target:  5'- cGCUCAGGGCgccaacaagacgccGGUCGcc-GUCGUgGCa -3'
miRNA:   3'- -CGGGUCCUGa-------------CCAGCuuuUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 47432 0.68 0.894517
Target:  5'- cGCCCAGG-UUGGgcgUGAAAucuAUUGcUGCg -3'
miRNA:   3'- -CGGGUCCuGACCa--GCUUU---UAGCaACG- -5'
12869 3' -49.8 NC_003387.1 + 34498 0.68 0.894517
Target:  5'- aCCCGcGGGCgaccaGGUCGccGGUCGUcGCg -3'
miRNA:   3'- cGGGU-CCUGa----CCAGCuuUUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 39915 0.68 0.894517
Target:  5'- cCCCGGGACgacugCGG---UCGUUGCg -3'
miRNA:   3'- cGGGUCCUGacca-GCUuuuAGCAACG- -5'
12869 3' -49.8 NC_003387.1 + 52058 0.68 0.887029
Target:  5'- -gCCGGGGCUGGggGAGcacAUCGU-GCa -3'
miRNA:   3'- cgGGUCCUGACCagCUUu--UAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 2511 0.69 0.836493
Target:  5'- aGUCCAGGugacGCgcgGGUCG----UCGUUGCc -3'
miRNA:   3'- -CGGGUCC----UGa--CCAGCuuuuAGCAACG- -5'
12869 3' -49.8 NC_003387.1 + 1495 0.69 0.835575
Target:  5'- gGCCCaAGGucagcgugcaccaGCcGGUCGuGAAGUCGggGCg -3'
miRNA:   3'- -CGGG-UCC-------------UGaCCAGC-UUUUAGCaaCG- -5'
12869 3' -49.8 NC_003387.1 + 21715 0.69 0.827211
Target:  5'- gGCCCGcgccGAcCUGGUCGugGAAAUCGUcGCc -3'
miRNA:   3'- -CGGGUc---CU-GACCAGC--UUUUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 51177 0.7 0.807998
Target:  5'- cCUCGGGGCcgaGGUCGAAcaGGUCGU-GCc -3'
miRNA:   3'- cGGGUCCUGa--CCAGCUU--UUAGCAaCG- -5'
12869 3' -49.8 NC_003387.1 + 21477 0.7 0.797089
Target:  5'- aGCCCGcgccggucgggccGGGCUGGuUCGu--GUCGcUGCa -3'
miRNA:   3'- -CGGGU-------------CCUGACC-AGCuuuUAGCaACG- -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.