miRNA display CGI


Results 1 - 13 of 13 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
11879 3' -58.6 NC_003266.2 + 15729 0.66 0.383837
Target:  5'- cGGCGGCACcguagcaccaCCGCcauGCGUGCGGcgcGAGc -3'
miRNA:   3'- -UCGCCGUG----------GGCG---CGCACGUCua-CUUu -5'
11879 3' -58.6 NC_003266.2 + 24932 0.66 0.357853
Target:  5'- cAGCGGCACgaaguccgagggcaGCGCGgaGCAGGUGGc- -3'
miRNA:   3'- -UCGCCGUGgg------------CGCGCa-CGUCUACUuu -5'
11879 3' -58.6 NC_003266.2 + 23053 0.67 0.307325
Target:  5'- gGGCGGCugCUGCGgCG-GCGG-UGGu- -3'
miRNA:   3'- -UCGCCGugGGCGC-GCaCGUCuACUuu -5'
11879 3' -58.6 NC_003266.2 + 20237 0.67 0.299581
Target:  5'- aGGCGGC-CCaguuGCGCGaGgGGAUGGAGa -3'
miRNA:   3'- -UCGCCGuGGg---CGCGCaCgUCUACUUU- -5'
11879 3' -58.6 NC_003266.2 + 93 0.68 0.291989
Target:  5'- cAGCGGCGuuCGUuagggGCGggGCAGGUGAc- -3'
miRNA:   3'- -UCGCCGUggGCG-----CGCa-CGUCUACUuu -5'
11879 3' -58.6 NC_003266.2 + 16661 0.68 0.291989
Target:  5'- aGGUGGC-CCCGggccuugGCGUGCAGAccgUGGAc -3'
miRNA:   3'- -UCGCCGuGGGCg------CGCACGUCU---ACUUu -5'
11879 3' -58.6 NC_003266.2 + 8081 0.69 0.249586
Target:  5'- uGGUGGUcaugcugacgaGCCCGCGCGggagGCAGGUc--- -3'
miRNA:   3'- -UCGCCG-----------UGGGCGCGCa---CGUCUAcuuu -5'
11879 3' -58.6 NC_003266.2 + 11553 0.69 0.236626
Target:  5'- cAGCGGCAgCCCGCGCuccUGCAccacGAUGc-- -3'
miRNA:   3'- -UCGCCGU-GGGCGCGc--ACGU----CUACuuu -5'
11879 3' -58.6 NC_003266.2 + 8470 0.7 0.195655
Target:  5'- cGuCGGCGCCgCGCGCGgGCAGGUu--- -3'
miRNA:   3'- uC-GCCGUGG-GCGCGCaCGUCUAcuuu -5'
11879 3' -58.6 NC_003266.2 + 6330 0.72 0.147941
Target:  5'- aGGCGGcCGCCCuuGCGCGaGCAGAaGggGg -3'
miRNA:   3'- -UCGCC-GUGGG--CGCGCaCGUCUaCuuU- -5'
11879 3' -58.6 NC_003266.2 + 16923 0.73 0.124649
Target:  5'- cGCGGUAgCCCG-GCGUGgGGAUGAu- -3'
miRNA:   3'- uCGCCGU-GGGCgCGCACgUCUACUuu -5'
11879 3' -58.6 NC_003266.2 + 13751 0.74 0.107886
Target:  5'- --aGGCGCCCGaCGCGggggcGCAGGUGAGc -3'
miRNA:   3'- ucgCCGUGGGC-GCGCa----CGUCUACUUu -5'
11879 3' -58.6 NC_003266.2 + 10965 0.95 0.002369
Target:  5'- gAGCGGCACCCGCG-GUGCAGAUGAAAa -3'
miRNA:   3'- -UCGCCGUGGGCGCgCACGUCUACUUU- -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.