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
28765 3' -54.3 NC_006146.1 + 41139 0.66 0.960025
Target:  5'- gUCGCgcucccuggAGGGAcgaggACUGGuCGGGGUCg-- -3'
miRNA:   3'- -AGUGa--------UUCCU-----UGACCuGCCCCAGgac -5'
28765 3' -54.3 NC_006146.1 + 167382 0.69 0.8496
Target:  5'- -gGCUGAgGGGGCUcccgaGGGCGGGGccggggCCUGg -3'
miRNA:   3'- agUGAUU-CCUUGA-----CCUGCCCCa-----GGAC- -5'
28765 3' -54.3 NC_006146.1 + 168314 0.69 0.8496
Target:  5'- -gGCUGAgGGGGCUcccgaGGGCGGGGccggggCCUGg -3'
miRNA:   3'- agUGAUU-CCUUGA-----CCUGCCCCa-----GGAC- -5'
28765 3' -54.3 NC_006146.1 + 169246 0.69 0.8496
Target:  5'- -gGCUGAgGGGGCUcccgaGGGCGGGGccggggCCUGg -3'
miRNA:   3'- agUGAUU-CCUUGA-----CCUGCCCCa-----GGAC- -5'
28765 3' -54.3 NC_006146.1 + 170177 0.69 0.8496
Target:  5'- -gGCUGAgGGGGCUcccgaGGGCGGGGccggggCCUGg -3'
miRNA:   3'- agUGAUU-CCUUGA-----CCUGCCCCa-----GGAC- -5'
28765 3' -54.3 NC_006146.1 + 127145 0.69 0.886751
Target:  5'- cCGCgu-GGAGCUGGACGGcGUCa-- -3'
miRNA:   3'- aGUGauuCCUUGACCUGCCcCAGgac -5'
28765 3' -54.3 NC_006146.1 + 86309 0.68 0.900063
Target:  5'- -gGCUGgaguAGGAGgccCUGGGCaGGGUCUUGa -3'
miRNA:   3'- agUGAU----UCCUU---GACCUGcCCCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 95006 0.67 0.929217
Target:  5'- cCACggcggucAGGAugUGGACGgagaGGGUCCc- -3'
miRNA:   3'- aGUGau-----UCCUugACCUGC----CCCAGGac -5'
28765 3' -54.3 NC_006146.1 + 51674 0.67 0.9392
Target:  5'- -aACUGaagGGGGGCgacgGGGCGGGGg-CUGa -3'
miRNA:   3'- agUGAU---UCCUUGa---CCUGCCCCagGAC- -5'
28765 3' -54.3 NC_006146.1 + 61819 0.68 0.893522
Target:  5'- aCAUUAGGGGcGCUGGugGGGG-CagUGg -3'
miRNA:   3'- aGUGAUUCCU-UGACCugCCCCaGg-AC- -5'
28765 3' -54.3 NC_006146.1 + 132350 1.08 0.005381
Target:  5'- gUCACUAAGGAACUGGACGGGGUCCUGc -3'
miRNA:   3'- -AGUGAUUCCUUGACCUGCCCCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 114341 0.75 0.549543
Target:  5'- cCcCUGAcGGAGgUGGACGGGGgCCUGg -3'
miRNA:   3'- aGuGAUU-CCUUgACCUGCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 161758 0.74 0.645389
Target:  5'- -gGCUGAGGuccgagggggcgcCUGGGCGGGGgCCUGa -3'
miRNA:   3'- agUGAUUCCuu-----------GACCUGCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 164329 0.73 0.672007
Target:  5'- gUCACUGAG--ACUGGGCGGGGUg--- -3'
miRNA:   3'- -AGUGAUUCcuUGACCUGCCCCAggac -5'
28765 3' -54.3 NC_006146.1 + 118216 0.71 0.770912
Target:  5'- cCGCcc-GGAGCUGGACGauGUCCUGg -3'
miRNA:   3'- aGUGauuCCUUGACCUGCccCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 51170 0.7 0.816279
Target:  5'- cCGCUGuGGGugUGGAagGGGGUCUg- -3'
miRNA:   3'- aGUGAUuCCUugACCUg-CCCCAGGac -5'
28765 3' -54.3 NC_006146.1 + 122484 0.69 0.865099
Target:  5'- gUUGCUcGGGGACgGcGGCGGGGUCgaGa -3'
miRNA:   3'- -AGUGAuUCCUUGaC-CUGCCCCAGgaC- -5'
28765 3' -54.3 NC_006146.1 + 136986 0.69 0.886751
Target:  5'- cCACcggaccgGAGGAGCUccaGGACGGGGguaggCCg- -3'
miRNA:   3'- aGUGa------UUCCUUGA---CCUGCCCCa----GGac -5'
28765 3' -54.3 NC_006146.1 + 96109 0.66 0.963507
Target:  5'- --uCUAAGGG--UGaGugGGGGUUCUGg -3'
miRNA:   3'- aguGAUUCCUugAC-CugCCCCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 103073 0.66 0.963507
Target:  5'- aCGCUGAcgcaccucacGGAGCUGuuuacuuccgaGGCGGGGcagagCCUGg -3'
miRNA:   3'- aGUGAUU----------CCUUGAC-----------CUGCCCCa----GGAC- -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.