miRNA display CGI


Results 1 - 20 of 20 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
11891 3' -56.2 NC_003266.2 + 8866 0.66 0.537358
Target:  5'- -cAGCCGCGUC-UGGAacgAGGCgGGCa- -3'
miRNA:   3'- uuUUGGCGCGGcAUCU---UCCGaCCGcc -5'
11891 3' -56.2 NC_003266.2 + 8410 0.66 0.537358
Target:  5'- gAGGACgCGCGCCG--GgcGGUaggGGCGGc -3'
miRNA:   3'- -UUUUG-GCGCGGCauCuuCCGa--CCGCC- -5'
11891 3' -56.2 NC_003266.2 + 20783 0.66 0.53077
Target:  5'- -uAACgGCGCUcuugccgaugagcggGUAGggGuaGUUGGCGGg -3'
miRNA:   3'- uuUUGgCGCGG---------------CAUCuuC--CGACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 17842 0.66 0.494046
Target:  5'- cGAACCGCccCCGUAcGAGGa-GGCGGu -3'
miRNA:   3'- uUUUGGCGc-GGCAUcUUCCgaCCGCC- -5'
11891 3' -56.2 NC_003266.2 + 15697 0.66 0.494046
Target:  5'- ---cCCGCGCCaagAGccGGC-GGCGGc -3'
miRNA:   3'- uuuuGGCGCGGca-UCuuCCGaCCGCC- -5'
11891 3' -56.2 NC_003266.2 + 8286 0.67 0.483463
Target:  5'- --cACCGCGCCGUu---GG-UGGCGa -3'
miRNA:   3'- uuuUGGCGCGGCAucuuCCgACCGCc -5'
11891 3' -56.2 NC_003266.2 + 23806 0.67 0.472991
Target:  5'- --cGCagGUGCCGUu--GGGCUGGCGc -3'
miRNA:   3'- uuuUGg-CGCGGCAucuUCCGACCGCc -5'
11891 3' -56.2 NC_003266.2 + 16511 0.67 0.472991
Target:  5'- --cGCCGCGUCGgggcuuGAAGcGCgagGGCGa -3'
miRNA:   3'- uuuUGGCGCGGCau----CUUC-CGa--CCGCc -5'
11891 3' -56.2 NC_003266.2 + 14723 0.67 0.449352
Target:  5'- -cAACCGCaGCCGUAGccaccgccucuaccGAGGUccggGGCGa -3'
miRNA:   3'- uuUUGGCG-CGGCAUC--------------UUCCGa---CCGCc -5'
11891 3' -56.2 NC_003266.2 + 26403 0.67 0.441283
Target:  5'- uGGGCgGCGCCGgcGGccaggcccaucugGGGCUGGUa- -3'
miRNA:   3'- uUUUGgCGCGGCauCU-------------UCCGACCGcc -5'
11891 3' -56.2 NC_003266.2 + 8499 0.67 0.432304
Target:  5'- --uACUGCGCCcggAGAAGaCUGGCGu -3'
miRNA:   3'- uuuUGGCGCGGca-UCUUCcGACCGCc -5'
11891 3' -56.2 NC_003266.2 + 23024 0.68 0.422455
Target:  5'- gAAAAgaG-GCCGaGGAGGaGCUGGCGGc -3'
miRNA:   3'- -UUUUggCgCGGCaUCUUC-CGACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 10875 0.68 0.399376
Target:  5'- gGAGGCagaaGCGCCGgcuguugcguaggAGggGGCUGcuguuGCGGu -3'
miRNA:   3'- -UUUUGg---CGCGGCa------------UCuuCCGAC-----CGCC- -5'
11891 3' -56.2 NC_003266.2 + 8903 0.68 0.384445
Target:  5'- aAAAACCGCGuaGUugcAGAGGcGCUGGUa- -3'
miRNA:   3'- -UUUUGGCGCggCA---UCUUC-CGACCGcc -5'
11891 3' -56.2 NC_003266.2 + 23472 0.69 0.34023
Target:  5'- uGGGGCCGCGaCaaagGUGGcGGGGCUgGGCGGc -3'
miRNA:   3'- -UUUUGGCGC-Gg---CAUC-UUCCGA-CCGCC- -5'
11891 3' -56.2 NC_003266.2 + 11506 0.7 0.323605
Target:  5'- cGGGCUGcCGCUGUccgAGAA-GCUGGCGGc -3'
miRNA:   3'- uUUUGGC-GCGGCA---UCUUcCGACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 17233 0.7 0.292193
Target:  5'- --cGCCGcCGCCGgu-GGGGgUGGCGGc -3'
miRNA:   3'- uuuUGGC-GCGGCaucUUCCgACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 31050 0.72 0.245661
Target:  5'- cGAGCCGCgGCCGUccauguccAGGAGGUcguugacaguguuguUGGUGGg -3'
miRNA:   3'- uUUUGGCG-CGGCA--------UCUUCCG---------------ACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 11412 0.72 0.218177
Target:  5'- -cAGCUGCGCCGUcAGcGGuuuGCUGGUGGg -3'
miRNA:   3'- uuUUGGCGCGGCA-UCuUC---CGACCGCC- -5'
11891 3' -56.2 NC_003266.2 + 17135 1.09 0.000427
Target:  5'- gAAAACCGCGCCGUAGAAGGCUGGCGGg -3'
miRNA:   3'- -UUUUGGCGCGGCAUCUUCCGACCGCC- -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.