miRNA display CGI


Results 1 - 20 of 21 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
3576 3' -47.6 NC_001650.1 + 4279 0.66 0.99993
Target:  5'- gCCUGGcagggcCUcUCCAUAUUUGGcAGGUu -3'
miRNA:   3'- gGGACCu-----GAaAGGUAUAGACCuUUCA- -5'
3576 3' -47.6 NC_001650.1 + 170986 0.66 0.99993
Target:  5'- gCCUGGcagggcCUcUCCAUAUUUGGcAGGUu -3'
miRNA:   3'- gGGACCu-----GAaAGGUAUAGACCuUUCA- -5'
3576 3' -47.6 NC_001650.1 + 86307 0.66 0.999907
Target:  5'- cUCCUcggcGGACUggUUCCAguaCUGGGAGGc -3'
miRNA:   3'- -GGGA----CCUGA--AAGGUauaGACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 2231 0.66 0.999907
Target:  5'- cCCCUGGcC--UCCAUGgccaaUGGGGAGa -3'
miRNA:   3'- -GGGACCuGaaAGGUAUag---ACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 168938 0.66 0.999907
Target:  5'- cCCCUGGcC--UCCAUGgccaaUGGGGAGa -3'
miRNA:   3'- -GGGACCuGaaAGGUAUag---ACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 137239 0.66 0.999879
Target:  5'- gCCCaUGGACcugcacUCCcaGUUUGGGAGGUg -3'
miRNA:   3'- -GGG-ACCUGaa----AGGuaUAGACCUUUCA- -5'
3576 3' -47.6 NC_001650.1 + 145773 0.67 0.999674
Target:  5'- gCCCggGGACUUcaUCCAcGUcCUGGggGa- -3'
miRNA:   3'- -GGGa-CCUGAA--AGGUaUA-GACCuuUca -5'
3576 3' -47.6 NC_001650.1 + 71342 0.68 0.999347
Target:  5'- aCCUGGGCc-UCCGUGuacauguUCUGGAGGc- -3'
miRNA:   3'- gGGACCUGaaAGGUAU-------AGACCUUUca -5'
3576 3' -47.6 NC_001650.1 + 145325 0.68 0.999031
Target:  5'- cCCUUGGAaaauaacCCAUgaucuGUCUGGAAGGg -3'
miRNA:   3'- -GGGACCUgaaa---GGUA-----UAGACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 139840 0.69 0.997922
Target:  5'- cCCCUGGAUUUUgCAccucgcGUCUGGAc--- -3'
miRNA:   3'- -GGGACCUGAAAgGUa-----UAGACCUuuca -5'
3576 3' -47.6 NC_001650.1 + 38222 0.69 0.997052
Target:  5'- aCgCUGGACgccgUUUgGUAUCgagGGGAGGUa -3'
miRNA:   3'- -GgGACCUGa---AAGgUAUAGa--CCUUUCA- -5'
3576 3' -47.6 NC_001650.1 + 98626 0.69 0.996515
Target:  5'- cCCCUGcagcgucaACUgUCCGUcUCUGGGAAGUu -3'
miRNA:   3'- -GGGACc-------UGAaAGGUAuAGACCUUUCA- -5'
3576 3' -47.6 NC_001650.1 + 101978 0.69 0.996515
Target:  5'- aCCUGGGCUcggggUCCcugAUCUGGAc--- -3'
miRNA:   3'- gGGACCUGAa----AGGua-UAGACCUuuca -5'
3576 3' -47.6 NC_001650.1 + 115028 0.69 0.996515
Target:  5'- cCCUUGGACUUUugguccuugagCCAcuUCUGGAGcauGGUg -3'
miRNA:   3'- -GGGACCUGAAA-----------GGUauAGACCUU---UCA- -5'
3576 3' -47.6 NC_001650.1 + 145264 0.7 0.993116
Target:  5'- cCCCUGGAaaaaaacaucCCAUgaucuGUCUGGAGGGg -3'
miRNA:   3'- -GGGACCUgaaa------GGUA-----UAGACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 110397 0.72 0.985435
Target:  5'- aCUUGGACUUcUCCGaAUCUGaGGAGGa -3'
miRNA:   3'- gGGACCUGAA-AGGUaUAGAC-CUUUCa -5'
3576 3' -47.6 NC_001650.1 + 158860 0.72 0.983554
Target:  5'- aCCUGGACcc-CCGUAgccgcCUGGAGGGa -3'
miRNA:   3'- gGGACCUGaaaGGUAUa----GACCUUUCa -5'
3576 3' -47.6 NC_001650.1 + 140421 0.75 0.939958
Target:  5'- uCCCUauagGGugUgUCCAUAUCUGGAGu-- -3'
miRNA:   3'- -GGGA----CCugAaAGGUAUAGACCUUuca -5'
3576 3' -47.6 NC_001650.1 + 54243 0.75 0.929597
Target:  5'- cCCCUauagGGugUgUCCAUAUCUGGAGu-- -3'
miRNA:   3'- -GGGA----CCugAaAGGUAUAGACCUUuca -5'
3576 3' -47.6 NC_001650.1 + 4354 1.1 0.019681
Target:  5'- cCCCUGGACUUUCCAUAUCUGGAAAGUu -3'
miRNA:   3'- -GGGACCUGAAAGGUAUAGACCUUUCA- -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.