miRNA display CGI


Results 1 - 17 of 17 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
1348 3' -58.4 NC_001335.1 + 3557 0.66 0.568506
Target:  5'- cGUUUCCGGcuccgacGGCugCgUCCAgagcgucuuggauGUCGCCu -3'
miRNA:   3'- cCAAAGGCC-------CCGugGaAGGU-------------CGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 14901 0.66 0.518326
Target:  5'- aGGUUUCCuuggcGGGCcugGCCUcccccUCCucCCGCCa -3'
miRNA:   3'- -CCAAAGGc----CCCG---UGGA-----AGGucGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 44403 0.66 0.560043
Target:  5'- ---cUCgGGGGacgUACCUgaaCCcGCCGCCg -3'
miRNA:   3'- ccaaAGgCCCC---GUGGAa--GGuCGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 32987 0.66 0.560043
Target:  5'- ---aUCCGuGGaGCACCgccccugcCCAGCCcgaGCCg -3'
miRNA:   3'- ccaaAGGC-CC-CGUGGaa------GGUCGG---CGG- -5'
1348 3' -58.4 NC_001335.1 + 26580 0.67 0.49188
Target:  5'- cGGaucagCCGGGGaccgaGCCgaacggccuugagCCGGCCGUCg -3'
miRNA:   3'- -CCaaa--GGCCCCg----UGGaa-----------GGUCGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 7038 0.67 0.497929
Target:  5'- cGGUaacCCGGucGGCaaGCCgcgUUCAGCCGCg -3'
miRNA:   3'- -CCAaa-GGCC--CCG--UGGa--AGGUCGGCGg -5'
1348 3' -58.4 NC_001335.1 + 37082 0.67 0.468034
Target:  5'- cGUaUgCGGGGCcCCUUCaccgaGGUCGCUg -3'
miRNA:   3'- cCAaAgGCCCCGuGGAAGg----UCGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 11815 0.68 0.420369
Target:  5'- uGGUggacCCGGacGGCACCggcUCCAacGCCGaCCu -3'
miRNA:   3'- -CCAaa--GGCC--CCGUGGa--AGGU--CGGC-GG- -5'
1348 3' -58.4 NC_001335.1 + 24168 0.69 0.358832
Target:  5'- ----aCCuGGGCACCagCCccGCCGCCg -3'
miRNA:   3'- ccaaaGGcCCCGUGGaaGGu-CGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 1305 0.69 0.367229
Target:  5'- cGGUgacgccUCCGGuaccGGCGCUgccgUUCCcuuGCCGCCu -3'
miRNA:   3'- -CCAa-----AGGCC----CCGUGG----AAGGu--CGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 1168 0.69 0.3749
Target:  5'- cGGga-CCGGGGcCGCCUUuacuuccCCGGCCuCCc -3'
miRNA:   3'- -CCaaaGGCCCC-GUGGAA-------GGUCGGcGG- -5'
1348 3' -58.4 NC_001335.1 + 35382 0.69 0.40214
Target:  5'- aGGUguucCCGGaGCuguucCCgcaCCAGCCGCCg -3'
miRNA:   3'- -CCAaa--GGCCcCGu----GGaa-GGUCGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 7577 0.7 0.350571
Target:  5'- ----aCCGGGGUgucggccgGCgCUUCCAGCgCGUCg -3'
miRNA:   3'- ccaaaGGCCCCG--------UG-GAAGGUCG-GCGG- -5'
1348 3' -58.4 NC_001335.1 + 30047 0.7 0.326607
Target:  5'- aGGg--CCGGGGguCCa-CCAGCuuCGCCa -3'
miRNA:   3'- -CCaaaGGCCCCguGGaaGGUCG--GCGG- -5'
1348 3' -58.4 NC_001335.1 + 39283 0.71 0.275496
Target:  5'- aGGUcUCCGGGGUACCgggUgCAGaaCCGUa -3'
miRNA:   3'- -CCAaAGGCCCCGUGGa--AgGUC--GGCGg -5'
1348 3' -58.4 NC_001335.1 + 1354 0.74 0.192693
Target:  5'- gGGgugUUGGGGCugCUgCCAccGCCGCCg -3'
miRNA:   3'- -CCaaaGGCCCCGugGAaGGU--CGGCGG- -5'
1348 3' -58.4 NC_001335.1 + 12543 1.14 0.00021
Target:  5'- cGGUUUCCGGGGCACCUUCCAGCCGCCa -3'
miRNA:   3'- -CCAAAGGCCCCGUGGAAGGUCGGCGG- -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.