miRNA display CGI


Results 1 - 6 of 6 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
28581 5' -56.6 NC_005965.1 + 1848 0.66 0.109838
Target:  5'- gGGuGACGuaGCUUCCAAacacgccGcCGCCGACCCa -3'
miRNA:   3'- -CC-UUGCc-CGGAGGUU-------CaGUGGCUGGG- -5'
28581 5' -56.6 NC_005965.1 + 1292 0.66 0.106609
Target:  5'- aGAACGGGaCCUCCGcucccgGGUCAagugaagGugCCg -3'
miRNA:   3'- cCUUGCCC-GGAGGU------UCAGUgg-----CugGG- -5'
28581 5' -56.6 NC_005965.1 + 2821 0.68 0.076277
Target:  5'- cGAACGcGGaucuguacUCUCCuuacuaucucAAGUCAUCGACCCu -3'
miRNA:   3'- cCUUGC-CC--------GGAGG----------UUCAGUGGCUGGG- -5'
28581 5' -56.6 NC_005965.1 + 3315 0.7 0.058148
Target:  5'- cGAuauCGGGCCUCCucugaGAGaUCGgCgGGCCCa -3'
miRNA:   3'- cCUu--GCCCGGAGG-----UUC-AGU-GgCUGGG- -5'
28581 5' -56.6 NC_005965.1 + 700 0.75 0.02067
Target:  5'- uGGACaGGCCaUCCGGGUUACCGcACUCg -3'
miRNA:   3'- cCUUGcCCGG-AGGUUCAGUGGC-UGGG- -5'
28581 5' -56.6 NC_005965.1 + 1361 1.13 0.000012
Target:  5'- uGGAACGGGCCUCCAAGUCACCGACCCc -3'
miRNA:   3'- -CCUUGCCCGGAGGUUCAGUGGCUGGG- -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.