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
31892 3' -60.9 NC_006938.1 + 32816 0.66 0.466359
Target:  5'- -aGGCcgacaaCCCCgccaaGCUGGCCGCGuGGCUc- -3'
miRNA:   3'- ggCCGa-----GGGG-----UGACCGGUGU-CCGAag -5'
31892 3' -60.9 NC_006938.1 + 45884 0.66 0.466359
Target:  5'- aCGGCccugUCCUCGCUGaCgGC-GGCUUCg -3'
miRNA:   3'- gGCCG----AGGGGUGACcGgUGuCCGAAG- -5'
31892 3' -60.9 NC_006938.1 + 15644 0.66 0.456797
Target:  5'- aCCGGUUCCagacggucauguCCAgCUGGCCACGGuCg-- -3'
miRNA:   3'- -GGCCGAGG------------GGU-GACCGGUGUCcGaag -5'
31892 3' -60.9 NC_006938.1 + 4363 0.66 0.456797
Target:  5'- aCCGGCUCUCCGuucacguccucCUGGaaCgGCAGGUaUCc -3'
miRNA:   3'- -GGCCGAGGGGU-----------GACC--GgUGUCCGaAG- -5'
31892 3' -60.9 NC_006938.1 + 63074 0.66 0.456797
Target:  5'- aCGcCUCCCUGCUGGCaACguGGGCUgUCg -3'
miRNA:   3'- gGCcGAGGGGUGACCGgUG--UCCGA-AG- -5'
31892 3' -60.9 NC_006938.1 + 28951 0.66 0.447342
Target:  5'- -aGGCUCgaggCCGCUGGCC-UGGGCg-- -3'
miRNA:   3'- ggCCGAGg---GGUGACCGGuGUCCGaag -5'
31892 3' -60.9 NC_006938.1 + 52117 0.66 0.447342
Target:  5'- --cGCUCCCUGCUGGCCgaccugacccaGCuGGCa-- -3'
miRNA:   3'- ggcCGAGGGGUGACCGG-----------UGuCCGaag -5'
31892 3' -60.9 NC_006938.1 + 29162 0.66 0.447342
Target:  5'- cUCGGCcgagucauaugCCaCCGCUGGCCugugaccgagacGCAGGCg-- -3'
miRNA:   3'- -GGCCGa----------GG-GGUGACCGG------------UGUCCGaag -5'
31892 3' -60.9 NC_006938.1 + 57555 0.66 0.437996
Target:  5'- gCUGGCacUCCCCAUUgucuucacGGCCACagAGGCc-- -3'
miRNA:   3'- -GGCCG--AGGGGUGA--------CCGGUG--UCCGaag -5'
31892 3' -60.9 NC_006938.1 + 22366 0.66 0.428762
Target:  5'- -aGcGCUCCCgGCgacGGCCugGCAGGCg-- -3'
miRNA:   3'- ggC-CGAGGGgUGa--CCGG--UGUCCGaag -5'
31892 3' -60.9 NC_006938.1 + 51412 0.66 0.423278
Target:  5'- gCCGGCcaucgCCgCCGCUGccaacaauGCCAUccugcucaucguggaGGGCUUCg -3'
miRNA:   3'- -GGCCGa----GG-GGUGAC--------CGGUG---------------UCCGAAG- -5'
31892 3' -60.9 NC_006938.1 + 50198 0.67 0.401768
Target:  5'- aCCGGCUaCUCCGCccaGGCaccgGCuGGCUUUg -3'
miRNA:   3'- -GGCCGA-GGGGUGa--CCGg---UGuCCGAAG- -5'
31892 3' -60.9 NC_006938.1 + 6748 0.67 0.393013
Target:  5'- aCGaGCUCUuuGCgaugGGCCA-GGGCUUCc -3'
miRNA:   3'- gGC-CGAGGggUGa---CCGGUgUCCGAAG- -5'
31892 3' -60.9 NC_006938.1 + 34128 0.67 0.384383
Target:  5'- cCCGGaggccuggaCCCGCUGGUCGCucuGGCUc- -3'
miRNA:   3'- -GGCCgag------GGGUGACCGGUGu--CCGAag -5'
31892 3' -60.9 NC_006938.1 + 38230 0.68 0.359257
Target:  5'- aCCGGCUCCCgacaaucuaUACUGGCC-CucGCcagUCa -3'
miRNA:   3'- -GGCCGAGGG---------GUGACCGGuGucCGa--AG- -5'
31892 3' -60.9 NC_006938.1 + 36398 0.68 0.351141
Target:  5'- ---uCUCCCUugUGGCCACGuGGCaggUCg -3'
miRNA:   3'- ggccGAGGGGugACCGGUGU-CCGa--AG- -5'
31892 3' -60.9 NC_006938.1 + 29051 0.69 0.305211
Target:  5'- aCCGGCUCuguCCCGCccaGGCCAgcGGCcUCg -3'
miRNA:   3'- -GGCCGAG---GGGUGa--CCGGUguCCGaAG- -5'
31892 3' -60.9 NC_006938.1 + 55408 0.69 0.298019
Target:  5'- gCGcGCUCgCCGCaGGCgGCcuGGGCUUCu -3'
miRNA:   3'- gGC-CGAGgGGUGaCCGgUG--UCCGAAG- -5'
31892 3' -60.9 NC_006938.1 + 41637 0.69 0.284032
Target:  5'- gCGGCUCCaCCACcgagaaguUGGCCG-GGGCUcCa -3'
miRNA:   3'- gGCCGAGG-GGUG--------ACCGGUgUCCGAaG- -5'
31892 3' -60.9 NC_006938.1 + 32295 0.7 0.264032
Target:  5'- gUCGGaCUUCCCug-GGCCACGGGUg-- -3'
miRNA:   3'- -GGCC-GAGGGGugaCCGGUGUCCGaag -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.