miRNA display CGI


Results 1 - 7 of 7 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
12138 3' -60.6 NC_003309.1 + 22000 1.07 0.000395
Target:  5'- gACCGGCUCCGCGUGCUCGAUGAGCCGu -3'
miRNA:   3'- -UGGCCGAGGCGCACGAGCUACUCGGC- -5'
12138 3' -60.6 NC_003309.1 + 15155 0.73 0.157754
Target:  5'- cCCGGCUCCaGC-UGCUgGAUGucuGCCGu -3'
miRNA:   3'- uGGCCGAGG-CGcACGAgCUACu--CGGC- -5'
12138 3' -60.6 NC_003309.1 + 45256 0.69 0.277038
Target:  5'- uGCCGGCcgCCGCGUGCgccUCGAauacGUCGg -3'
miRNA:   3'- -UGGCCGa-GGCGCACG---AGCUacu-CGGC- -5'
12138 3' -60.6 NC_003309.1 + 912 0.68 0.312624
Target:  5'- aACCGGCgcuugCCgGUGcGCUUGuUGAGCCa -3'
miRNA:   3'- -UGGCCGa----GG-CGCaCGAGCuACUCGGc -5'
12138 3' -60.6 NC_003309.1 + 31638 0.66 0.448703
Target:  5'- uGCCcGCU-CGCGUGCgcuuccugUCGAUgGAGCCu -3'
miRNA:   3'- -UGGcCGAgGCGCACG--------AGCUA-CUCGGc -5'
12138 3' -60.6 NC_003309.1 + 52704 0.66 0.438326
Target:  5'- uACCGGCUCCgaguuggcgauugGCGUGUguuguacgaaaUCGAaGAugGCCGc -3'
miRNA:   3'- -UGGCCGAGG-------------CGCACG-----------AGCUaCU--CGGC- -5'
12138 3' -60.6 NC_003309.1 + 41373 0.66 0.411644
Target:  5'- gGCgGGCaagCCGCGUgguugGCUCGAcaucgaucaUGAGCgGa -3'
miRNA:   3'- -UGgCCGa--GGCGCA-----CGAGCU---------ACUCGgC- -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.