miRNA display CGI


Results 1 - 19 of 19 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
20645 3' -55.8 NC_004688.1 + 99942 0.66 0.877191
Target:  5'- cUCCAGGgcgCUGCCggcgCUgguggcagugaCCUGCGUGauaCCg -3'
miRNA:   3'- -AGGUCCa--GGCGGa---GA-----------GGAUGUAUg--GG- -5'
20645 3' -55.8 NC_004688.1 + 27535 0.66 0.865235
Target:  5'- cCCGGGgagGCCUggaggagucggucacCUCCUugacgGCGUACCCg -3'
miRNA:   3'- aGGUCCaggCGGA---------------GAGGA-----UGUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 88281 0.66 0.862159
Target:  5'- gUCgAGGUCgGCCUUgccggcggcaaCCUGCuUAUCCa -3'
miRNA:   3'- -AGgUCCAGgCGGAGa----------GGAUGuAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 41168 0.66 0.862159
Target:  5'- aCCAGGguggcagCgGCCUgCUCCggGCAcuCCCg -3'
miRNA:   3'- aGGUCCa------GgCGGA-GAGGa-UGUauGGG- -5'
20645 3' -55.8 NC_004688.1 + 106310 0.66 0.854317
Target:  5'- uUCCGGGcuuagccauaUCCGCggCUCCUGa--ACCCc -3'
miRNA:   3'- -AGGUCC----------AGGCGgaGAGGAUguaUGGG- -5'
20645 3' -55.8 NC_004688.1 + 73512 0.66 0.846267
Target:  5'- aCCAGaugCCGCC-CUCCacgUAgGUGCCUg -3'
miRNA:   3'- aGGUCca-GGCGGaGAGG---AUgUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 15406 0.66 0.846267
Target:  5'- aUCCcggAGG-CCGCUUCcCCUACAU-CCg -3'
miRNA:   3'- -AGG---UCCaGGCGGAGaGGAUGUAuGGg -5'
20645 3' -55.8 NC_004688.1 + 87979 0.67 0.82957
Target:  5'- cCCAGGUcgCCGCCgcggCgCCUACcccUACCg -3'
miRNA:   3'- aGGUCCA--GGCGGa---GaGGAUGu--AUGGg -5'
20645 3' -55.8 NC_004688.1 + 29818 0.67 0.803151
Target:  5'- cUCCAGGacaUUCGCCg--CCacCGUGCCCa -3'
miRNA:   3'- -AGGUCC---AGGCGGagaGGauGUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 87745 0.68 0.756036
Target:  5'- cUCCGGGU-CGuCCaUCUCCUugAUggcguccgagaaACCCg -3'
miRNA:   3'- -AGGUCCAgGC-GG-AGAGGAugUA------------UGGG- -5'
20645 3' -55.8 NC_004688.1 + 45217 0.68 0.756036
Target:  5'- -aCAGG-CgCGCCUCcucggcaaccauUCCUGCAU-CCCa -3'
miRNA:   3'- agGUCCaG-GCGGAG------------AGGAUGUAuGGG- -5'
20645 3' -55.8 NC_004688.1 + 103031 0.68 0.752128
Target:  5'- cCCAGGccgauggccgaagCCGCCuUCUCgaucggcgACAUGCCCa -3'
miRNA:   3'- aGGUCCa------------GGCGG-AGAGga------UGUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 89876 0.69 0.70303
Target:  5'- gUCCAGGUCgCGCCgucaucguuggacuUCUCCaccuCGUAUUCg -3'
miRNA:   3'- -AGGUCCAG-GCGG--------------AGAGGau--GUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 17529 0.7 0.675267
Target:  5'- cCCAGGUgaagaacucgCCGUCUUUCCaggagACGUACgCCa -3'
miRNA:   3'- aGGUCCA----------GGCGGAGAGGa----UGUAUG-GG- -5'
20645 3' -55.8 NC_004688.1 + 46946 0.7 0.664907
Target:  5'- gCCGGGgaCCGCCUCggCgggGCGUGCCg -3'
miRNA:   3'- aGGUCCa-GGCGGAGagGa--UGUAUGGg -5'
20645 3' -55.8 NC_004688.1 + 15719 0.7 0.644114
Target:  5'- cCCGGG-CCGUCUCUCg-ACAgcCCCu -3'
miRNA:   3'- aGGUCCaGGCGGAGAGgaUGUauGGG- -5'
20645 3' -55.8 NC_004688.1 + 18832 0.7 0.64099
Target:  5'- gCCGGGggCCGCCcCaugCCUgaccacgagggcggGCAUACCCa -3'
miRNA:   3'- aGGUCCa-GGCGGaGa--GGA--------------UGUAUGGG- -5'
20645 3' -55.8 NC_004688.1 + 57216 0.71 0.612872
Target:  5'- -gCGGGUCCGCCcaggCUCCgGCAUugacgucgccgGCCUg -3'
miRNA:   3'- agGUCCAGGCGGa---GAGGaUGUA-----------UGGG- -5'
20645 3' -55.8 NC_004688.1 + 23104 0.74 0.416456
Target:  5'- gCCAcGUUCGCCUCgUCCUGCccuuugGUGCCCc -3'
miRNA:   3'- aGGUcCAGGCGGAG-AGGAUG------UAUGGG- -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.