miRNA display CGI


Results 41 - 58 of 58 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
1962 3' -52.3 NC_001347.2 + 158728 0.66 0.994947
Target:  5'- uGCAGCaGgcgCGcGGcGGuUUAGCAGCGGCu -3'
miRNA:   3'- -UGUUG-Ca--GCaCCuUC-AGUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 20885 0.66 0.994947
Target:  5'- cCGACGUCGcUGGAAaugCAuCAGCuGCg -3'
miRNA:   3'- uGUUGCAGC-ACCUUca-GUcGUCGuCG- -5'
1962 3' -52.3 NC_001347.2 + 174994 0.67 0.98994
Target:  5'- uGguGCGggcCGUGccgguGGAGUC-GCAGCAGCg -3'
miRNA:   3'- -UguUGCa--GCAC-----CUUCAGuCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 188248 0.67 0.98994
Target:  5'- gACGACGagGUGGug--CAGCgugagaaacAGCAGCu -3'
miRNA:   3'- -UGUUGCagCACCuucaGUCG---------UCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 158193 0.67 0.988584
Target:  5'- -gGugGcCGUGGucuGUCGGCAGU-GCg -3'
miRNA:   3'- ugUugCaGCACCuu-CAGUCGUCGuCG- -5'
1962 3' -52.3 NC_001347.2 + 34322 0.69 0.969179
Target:  5'- gACGugGgcggCGaUGaGAAcGUCAGCGGUGGCg -3'
miRNA:   3'- -UGUugCa---GC-AC-CUU-CAGUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 77062 0.69 0.969179
Target:  5'- cCGGCcUCGgacGAAG-CGGCAGCGGCg -3'
miRNA:   3'- uGUUGcAGCac-CUUCaGUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 78361 0.68 0.974757
Target:  5'- cCGGCGUgGUGGGAccCGGCGGC-GCc -3'
miRNA:   3'- uGUUGCAgCACCUUcaGUCGUCGuCG- -5'
1962 3' -52.3 NC_001347.2 + 150581 0.68 0.981692
Target:  5'- uCAGCGUCGgcuccGGcAG-UAGUGGCGGCg -3'
miRNA:   3'- uGUUGCAGCa----CCuUCaGUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 210071 0.68 0.974757
Target:  5'- aACAcCGUUGguUGGAGaagcguauucgcGUCAGgAGCAGCg -3'
miRNA:   3'- -UGUuGCAGC--ACCUU------------CAGUCgUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 37935 0.68 0.972068
Target:  5'- cGCGGCG-CGcGGGug-CAGguGCAGCg -3'
miRNA:   3'- -UGUUGCaGCaCCUucaGUCguCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 173812 0.68 0.981692
Target:  5'- -uGACGUCcaaagGUGGA--UCgGGCGGCGGCg -3'
miRNA:   3'- ugUUGCAG-----CACCUucAG-UCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 77298 0.68 0.981692
Target:  5'- gGCGuCGUCGUacuuGGgcGUgGGCcGCGGCg -3'
miRNA:   3'- -UGUuGCAGCA----CCuuCAgUCGuCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 93218 0.67 0.983651
Target:  5'- gGCGACGagcUCGcUGaGcGG-CAGCGGCGGCa -3'
miRNA:   3'- -UGUUGC---AGC-AC-CuUCaGUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 128436 0.67 0.987089
Target:  5'- cACGGCGccugcugCGUGGccGUCaAGCGGC-GCg -3'
miRNA:   3'- -UGUUGCa------GCACCuuCAG-UCGUCGuCG- -5'
1962 3' -52.3 NC_001347.2 + 104327 0.67 0.987089
Target:  5'- cACGACGagGUGGAccgcuGGaucCGGCAcGCGGCc -3'
miRNA:   3'- -UGUUGCagCACCU-----UCa--GUCGU-CGUCG- -5'
1962 3' -52.3 NC_001347.2 + 9500 0.67 0.988584
Target:  5'- cGCAACGaUUcUGGAAaugCGGUAGUAGCa -3'
miRNA:   3'- -UGUUGC-AGcACCUUca-GUCGUCGUCG- -5'
1962 3' -52.3 NC_001347.2 + 68677 0.66 0.994947
Target:  5'- cACGACGguaGUaGGGAGaUCcaugacGCGGCGGCg -3'
miRNA:   3'- -UGUUGCag-CA-CCUUC-AGu-----CGUCGUCG- -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.