miRNA display CGI


Results 1 - 20 of 33 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
22321 3' -61.4 NC_005045.1 + 42285 0.72 0.124395
Target:  5'- uCCCUGGCUCuGGCCCUggcugcuggGUACGggCUGUg -3'
miRNA:   3'- -GGGGCCGAG-CCGGGA---------CGUGUagGACG- -5'
22321 3' -61.4 NC_005045.1 + 39665 0.68 0.246965
Target:  5'- gCCCUGggcggcacGCUUGGCCC-GUACAUCCa-- -3'
miRNA:   3'- -GGGGC--------CGAGCCGGGaCGUGUAGGacg -5'
22321 3' -61.4 NC_005045.1 + 39224 0.69 0.223066
Target:  5'- -aCCGGCcCGGCCagaUGCGCAUCaggaaGCc -3'
miRNA:   3'- ggGGCCGaGCCGGg--ACGUGUAGga---CG- -5'
22321 3' -61.4 NC_005045.1 + 36397 0.66 0.363891
Target:  5'- -aCCGGCUUGGgCCgGCGaa-UCUGCg -3'
miRNA:   3'- ggGGCCGAGCCgGGaCGUguaGGACG- -5'
22321 3' -61.4 NC_005045.1 + 34419 0.71 0.150357
Target:  5'- -aCCaGCUCGGCCCcguUGCACAgcgggCCaGCg -3'
miRNA:   3'- ggGGcCGAGCCGGG---ACGUGUa----GGaCG- -5'
22321 3' -61.4 NC_005045.1 + 33839 0.67 0.279086
Target:  5'- aCCCCGGUcgCGGUgcgaaguCCUcgaaaccacGCACA-CCUGCu -3'
miRNA:   3'- -GGGGCCGa-GCCG-------GGA---------CGUGUaGGACG- -5'
22321 3' -61.4 NC_005045.1 + 33140 0.71 0.166435
Target:  5'- cCUCCGGUccgaugcugacaCGGCCCUGagcCGCGUCCUGg -3'
miRNA:   3'- -GGGGCCGa-----------GCCGGGAC---GUGUAGGACg -5'
22321 3' -61.4 NC_005045.1 + 32830 0.66 0.347369
Target:  5'- -aCCGGgUUGGUgCCUaCACGUCCUGg -3'
miRNA:   3'- ggGGCCgAGCCG-GGAcGUGUAGGACg -5'
22321 3' -61.4 NC_005045.1 + 32251 0.73 0.117455
Target:  5'- uUCCGGCauccacgUCGGcCCCUGCGgCAUCCaGCc -3'
miRNA:   3'- gGGGCCG-------AGCC-GGGACGU-GUAGGaCG- -5'
22321 3' -61.4 NC_005045.1 + 32109 0.67 0.279776
Target:  5'- uCUgCGGCUCGGUCgUGCugGCAUggCUGCu -3'
miRNA:   3'- -GGgGCCGAGCCGGgACG--UGUAg-GACG- -5'
22321 3' -61.4 NC_005045.1 + 30291 0.79 0.037177
Target:  5'- gCCCCGGCccaGGCCCUGCGCGagUUCaGCg -3'
miRNA:   3'- -GGGGCCGag-CCGGGACGUGU--AGGaCG- -5'
22321 3' -61.4 NC_005045.1 + 30102 0.7 0.190928
Target:  5'- uCCCCaGGCgcaGGCCgaGCuGCGUacCCUGCa -3'
miRNA:   3'- -GGGG-CCGag-CCGGgaCG-UGUA--GGACG- -5'
22321 3' -61.4 NC_005045.1 + 28599 0.69 0.23476
Target:  5'- gCCCCGGCcUGaGCCUcgGCGCuUCCgccgGCu -3'
miRNA:   3'- -GGGGCCGaGC-CGGGa-CGUGuAGGa---CG- -5'
22321 3' -61.4 NC_005045.1 + 27416 0.67 0.279776
Target:  5'- aUCCCGaGCUacaugccggggcCGGCUgaGUACAUCCagGCg -3'
miRNA:   3'- -GGGGC-CGA------------GCCGGgaCGUGUAGGa-CG- -5'
22321 3' -61.4 NC_005045.1 + 23290 0.67 0.301076
Target:  5'- aCCgGGUUCGGCaucaCCUGCACAUgguucggggUCgGCg -3'
miRNA:   3'- gGGgCCGAGCCG----GGACGUGUA---------GGaCG- -5'
22321 3' -61.4 NC_005045.1 + 23118 0.72 0.124395
Target:  5'- gCgCGGCcUGGgCCUGCGCggCCUGCu -3'
miRNA:   3'- gGgGCCGaGCCgGGACGUGuaGGACG- -5'
22321 3' -61.4 NC_005045.1 + 22224 0.66 0.355562
Target:  5'- -aCCGGacagguugCGGCCUgcGCGCAucaggUCCUGCu -3'
miRNA:   3'- ggGGCCga------GCCGGGa-CGUGU-----AGGACG- -5'
22321 3' -61.4 NC_005045.1 + 17876 0.67 0.308449
Target:  5'- aCCUCGGCggCGGCCaUUGCAUugaacgCCUcauGCa -3'
miRNA:   3'- -GGGGCCGa-GCCGG-GACGUGua----GGA---CG- -5'
22321 3' -61.4 NC_005045.1 + 16906 0.74 0.102643
Target:  5'- -aCCuGCUggUGGCCCUGCACAagCUGCu -3'
miRNA:   3'- ggGGcCGA--GCCGGGACGUGUagGACG- -5'
22321 3' -61.4 NC_005045.1 + 16162 0.72 0.124395
Target:  5'- -aCgGGCUUGGUgcgggguguCCUGCACcgGUCCUGCa -3'
miRNA:   3'- ggGgCCGAGCCG---------GGACGUG--UAGGACG- -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.