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
7367 3' -57 NC_001900.1 + 12625 0.66 0.609381
Target:  5'- -gGCGAGC-UG-CGGCCcGGUgaGGCCg -3'
miRNA:   3'- caCGCUCGuGCaGUUGGaCCAg-CCGG- -5'
7367 3' -57 NC_001900.1 + 13304 0.66 0.608287
Target:  5'- -aGC-AGUACGUCGGcggcguguucaccCCUGGcuaCGGCCa -3'
miRNA:   3'- caCGcUCGUGCAGUU-------------GGACCa--GCCGG- -5'
7367 3' -57 NC_001900.1 + 22099 0.66 0.607194
Target:  5'- -aGCG-GCACGacaugaacaacgCAGCgaGGUgGGCCg -3'
miRNA:   3'- caCGCuCGUGCa-----------GUUGgaCCAgCCGG- -5'
7367 3' -57 NC_001900.1 + 11437 0.66 0.598454
Target:  5'- cGUGCgGAGCGCGggCAACgcguuCUGGUcgCGGUa -3'
miRNA:   3'- -CACG-CUCGUGCa-GUUG-----GACCA--GCCGg -5'
7367 3' -57 NC_001900.1 + 5581 0.66 0.587555
Target:  5'- -gGCGGcGCAC--CGAgCUGGcCGGCCg -3'
miRNA:   3'- caCGCU-CGUGcaGUUgGACCaGCCGG- -5'
7367 3' -57 NC_001900.1 + 13079 0.66 0.587555
Target:  5'- -gGCGAacauCGCGaUCAugCUGGUCGaGCa -3'
miRNA:   3'- caCGCUc---GUGC-AGUugGACCAGC-CGg -5'
7367 3' -57 NC_001900.1 + 35083 0.66 0.586467
Target:  5'- cUGCucAGCACGUCGugCcgacguaccggacUGGUUGGCg -3'
miRNA:   3'- cACGc-UCGUGCAGUugG-------------ACCAGCCGg -5'
7367 3' -57 NC_001900.1 + 40277 0.66 0.565878
Target:  5'- -cGCGGGuCAUGUCcucGACCgugUGGcCGGUCg -3'
miRNA:   3'- caCGCUC-GUGCAG---UUGG---ACCaGCCGG- -5'
7367 3' -57 NC_001900.1 + 32791 0.66 0.562643
Target:  5'- -cGCGAGCGCGUaccgguccucauccCAACCUcGGUaCuGCUg -3'
miRNA:   3'- caCGCUCGUGCA--------------GUUGGA-CCA-GcCGG- -5'
7367 3' -57 NC_001900.1 + 42718 0.67 0.555115
Target:  5'- uUGCGcuGCugGUUGACCUuGacagCGGCCg -3'
miRNA:   3'- cACGCu-CGugCAGUUGGAcCa---GCCGG- -5'
7367 3' -57 NC_001900.1 + 18034 0.67 0.533778
Target:  5'- cGUGCcGGUgguccagauCGUCAucaACCUGGcugCGGCCg -3'
miRNA:   3'- -CACGcUCGu--------GCAGU---UGGACCa--GCCGG- -5'
7367 3' -57 NC_001900.1 + 45810 0.67 0.502349
Target:  5'- -gGCaGAGCAUcuccagGUCGaacggguuGCCgaGGUCGGCCa -3'
miRNA:   3'- caCG-CUCGUG------CAGU--------UGGa-CCAGCCGG- -5'
7367 3' -57 NC_001900.1 + 16911 0.67 0.502349
Target:  5'- -cGCGccGCuuGUCGGCUUGGUggcUGGCCu -3'
miRNA:   3'- caCGCu-CGugCAGUUGGACCA---GCCGG- -5'
7367 3' -57 NC_001900.1 + 23296 0.68 0.492051
Target:  5'- --uCGAGCGaGUCAACaccacggcGGUCGGCCc -3'
miRNA:   3'- cacGCUCGUgCAGUUGga------CCAGCCGG- -5'
7367 3' -57 NC_001900.1 + 26870 0.68 0.471756
Target:  5'- uGUGCGAGCAuCGcUCGGuucuCCUGGUCuGUg -3'
miRNA:   3'- -CACGCUCGU-GC-AGUU----GGACCAGcCGg -5'
7367 3' -57 NC_001900.1 + 35146 0.68 0.471756
Target:  5'- cGUGCGGGUA-GUCAGCgaGGaaUCGGUUc -3'
miRNA:   3'- -CACGCUCGUgCAGUUGgaCC--AGCCGG- -5'
7367 3' -57 NC_001900.1 + 31375 0.68 0.441165
Target:  5'- cUGCaGAGCGCccGUCAgcaucguGCCgaggGuGUCGGCCa -3'
miRNA:   3'- cACG-CUCGUG--CAGU-------UGGa---C-CAGCCGG- -5'
7367 3' -57 NC_001900.1 + 12777 0.69 0.413594
Target:  5'- -aGCGAcCACGUCGuggagggcACCacGGUCGGCUu -3'
miRNA:   3'- caCGCUcGUGCAGU--------UGGa-CCAGCCGG- -5'
7367 3' -57 NC_001900.1 + 20251 0.69 0.404335
Target:  5'- -cGgGGGcCACGUCAACCaGGUCguGGaCCa -3'
miRNA:   3'- caCgCUC-GUGCAGUUGGaCCAG--CC-GG- -5'
7367 3' -57 NC_001900.1 + 36724 0.69 0.404335
Target:  5'- uGUGCaGGUACGgCAGCUUGGU-GGCUg -3'
miRNA:   3'- -CACGcUCGUGCaGUUGGACCAgCCGG- -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.