miRNA display CGI


Results 1 - 20 of 58 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
20644 3' -61.8 NC_004688.1 + 71214 0.66 0.602914
Target:  5'- --cGCCGGGCggUgucucaaguugaUGGGGCcuacuguauAGGCCCu -3'
miRNA:   3'- gacCGGCCCGuuG------------GCCCUGu--------UCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 91816 0.66 0.592921
Target:  5'- -cGGCCccauGGCGAUCGGcuGCcGGGCCUg -3'
miRNA:   3'- gaCCGGc---CCGUUGGCCc-UGuUCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 83333 0.66 0.582957
Target:  5'- -cGGCCGGGgAucaggaaguugACCGcGGAUucGGUCUc -3'
miRNA:   3'- gaCCGGCCCgU-----------UGGC-CCUGuuCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 23592 0.66 0.582957
Target:  5'- aUGGauaCGGGauuGCCGccGGGCuccAGGCCCc -3'
miRNA:   3'- gACCg--GCCCgu-UGGC--CCUGu--UCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 80476 0.66 0.582957
Target:  5'- aUGGUCgccaGGGCGcCCGGGAacAGGUCg -3'
miRNA:   3'- gACCGG----CCCGUuGGCCCUguUCCGGg -5'
20644 3' -61.8 NC_004688.1 + 6508 0.66 0.582957
Target:  5'- -cGGaCCuGGGCgAACCGuuGGACGaugAGGCCa -3'
miRNA:   3'- gaCC-GG-CCCG-UUGGC--CCUGU---UCCGGg -5'
20644 3' -61.8 NC_004688.1 + 24453 0.66 0.573026
Target:  5'- -aGGUCGucGGCuAUCGGGACGauggAGaGCCCc -3'
miRNA:   3'- gaCCGGC--CCGuUGGCCCUGU----UC-CGGG- -5'
20644 3' -61.8 NC_004688.1 + 67997 0.66 0.573026
Target:  5'- -aGGCCcucGUAGCCgGGGGCuGGGCgCCa -3'
miRNA:   3'- gaCCGGcc-CGUUGG-CCCUGuUCCG-GG- -5'
20644 3' -61.8 NC_004688.1 + 50888 0.66 0.572035
Target:  5'- -cGGCCcgaGGGUGccaccgcGCCGGcGAcCAAGcGCCCg -3'
miRNA:   3'- gaCCGG---CCCGU-------UGGCC-CU-GUUC-CGGG- -5'
20644 3' -61.8 NC_004688.1 + 99690 0.66 0.562149
Target:  5'- -gGGUCGGGUcggucacGACCGGcaggccguGCAucuGGCCCa -3'
miRNA:   3'- gaCCGGCCCG-------UUGGCCc-------UGUu--CCGGG- -5'
20644 3' -61.8 NC_004688.1 + 73828 0.66 0.560177
Target:  5'- gUGGCCGucgucGCGucgcugauggcaggAUCGGGAacAGGCCCg -3'
miRNA:   3'- gACCGGCc----CGU--------------UGGCCCUguUCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 41345 0.66 0.553291
Target:  5'- --cGCCGaGGCGcuucACCGGGAUuuccucGGGCUCc -3'
miRNA:   3'- gacCGGC-CCGU----UGGCCCUGu-----UCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 11511 0.66 0.553291
Target:  5'- --aGCCGGGUGAuCCuGGACGAGGgCg -3'
miRNA:   3'- gacCGGCCCGUU-GGcCCUGUUCCgGg -5'
20644 3' -61.8 NC_004688.1 + 14813 0.66 0.543499
Target:  5'- -cGGCgCGGGCGcguuGCaucuuguugCGGGugAAGGCgCg -3'
miRNA:   3'- gaCCG-GCCCGU----UG---------GCCCugUUCCGgG- -5'
20644 3' -61.8 NC_004688.1 + 18764 0.66 0.542522
Target:  5'- uUGGCCGGauGCGgguCCGGGuCGAcguauucGGCCUc -3'
miRNA:   3'- gACCGGCC--CGUu--GGCCCuGUU-------CCGGG- -5'
20644 3' -61.8 NC_004688.1 + 37754 0.67 0.531824
Target:  5'- -cGGCCaGGGCuuuuagaugcuCCuGGACu-GGCCCa -3'
miRNA:   3'- gaCCGG-CCCGuu---------GGcCCUGuuCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 62396 0.67 0.525056
Target:  5'- -cGGCCaGGC--CCGGGGaaccugaaucccauGGGCCCg -3'
miRNA:   3'- gaCCGGcCCGuuGGCCCUgu------------UCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 8945 0.67 0.514487
Target:  5'- --cGCCGGcGCAACgGGGAguuguuCGAGGUCg -3'
miRNA:   3'- gacCGGCC-CGUUGgCCCU------GUUCCGGg -5'
20644 3' -61.8 NC_004688.1 + 77308 0.67 0.514487
Target:  5'- gUGGCguugaacuuccCGGGCuGACCGGccuGACcguugauacccAAGGCCCa -3'
miRNA:   3'- gACCG-----------GCCCG-UUGGCC---CUG-----------UUCCGGG- -5'
20644 3' -61.8 NC_004688.1 + 84779 0.67 0.507806
Target:  5'- -aGGCCGGGUagaccaccgccagccGcaccgcccgcagcACCgGGGGCAcggcuccggggAGGCCCg -3'
miRNA:   3'- gaCCGGCCCG---------------U-------------UGG-CCCUGU-----------UCCGGG- -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.