miRNA display CGI


Results 1 - 12 of 12 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
2904 3' -56.3 NC_001493.1 + 26313 0.66 0.867737
Target:  5'- gGGGuCCACCccccucucccAUGGACgCUCUCGGAc -3'
miRNA:   3'- -CCCuGGUGGcac-------UACCUG-GAGAGCUU- -5'
2904 3' -56.3 NC_001493.1 + 8020 0.67 0.849195
Target:  5'- cGGGGCCACCGggcggGAggGGAUcgaucacggguugaaCUUUCGGGa -3'
miRNA:   3'- -CCCUGGUGGCa----CUa-CCUG---------------GAGAGCUU- -5'
2904 3' -56.3 NC_001493.1 + 123574 0.67 0.849195
Target:  5'- cGGGGCCACCGggcggGAggGGAUcgaucacggguugaaCUUUCGGGa -3'
miRNA:   3'- -CCCUGGUGGCa----CUa-CCUG---------------GAGAGCUU- -5'
2904 3' -56.3 NC_001493.1 + 93226 0.67 0.812304
Target:  5'- uGGGAUgGCUGcGAUGaaGGCCUCUaCGAAg -3'
miRNA:   3'- -CCCUGgUGGCaCUAC--CUGGAGA-GCUU- -5'
2904 3' -56.3 NC_001493.1 + 53551 0.68 0.794439
Target:  5'- cGGGAUCGCCaccgcgGUGAUGGACUccguggaUUCGGAa -3'
miRNA:   3'- -CCCUGGUGG------CACUACCUGGa------GAGCUU- -5'
2904 3' -56.3 NC_001493.1 + 108863 0.68 0.775984
Target:  5'- -cGACCAUCGccugcGAUGGACCcgaggCUCGAGg -3'
miRNA:   3'- ccCUGGUGGCa----CUACCUGGa----GAGCUU- -5'
2904 3' -56.3 NC_001493.1 + 3028 0.68 0.766558
Target:  5'- uGGGACgGCCGcgggGAUGGcAUC-CUCGAc -3'
miRNA:   3'- -CCCUGgUGGCa---CUACC-UGGaGAGCUu -5'
2904 3' -56.3 NC_001493.1 + 118583 0.68 0.766558
Target:  5'- uGGGACgGCCGcgggGAUGGcAUC-CUCGAc -3'
miRNA:   3'- -CCCUGgUGGCa---CUACC-UGGaGAGCUu -5'
2904 3' -56.3 NC_001493.1 + 19548 0.68 0.75701
Target:  5'- aGGcGGCCGCCGUGAagacgagagagcUGGccagcacgcucuACCUCUUGGc -3'
miRNA:   3'- -CC-CUGGUGGCACU------------ACC------------UGGAGAGCUu -5'
2904 3' -56.3 NC_001493.1 + 105602 0.68 0.756049
Target:  5'- --cGCCAUCGaaguucagcucggUGAUGGACCUCUUGGc -3'
miRNA:   3'- cccUGGUGGC-------------ACUACCUGGAGAGCUu -5'
2904 3' -56.3 NC_001493.1 + 62102 0.74 0.421417
Target:  5'- cGGGAuCCGCCG-GAUucGACCUCUCGGu -3'
miRNA:   3'- -CCCU-GGUGGCaCUAc-CUGGAGAGCUu -5'
2904 3' -56.3 NC_001493.1 + 29899 1.09 0.002558
Target:  5'- cGGGACCACCGUGAUGGACCUCUCGAAg -3'
miRNA:   3'- -CCCUGGUGGCACUACCUGGAGAGCUU- -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.