miRNA display CGI


Results 1 - 8 of 8 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
2367 3' -48.6 NC_001416.1 + 15875 0.69 0.877333
Target:  5'- gCGCAGACGGUCgauGUuugcagACGUAAUGguGCGg -3'
miRNA:   3'- -GCGUCUGCUAGac-CA------UGCGUUAU--UGC- -5'
2367 3' -48.6 NC_001416.1 + 11532 0.78 0.408617
Target:  5'- aGCAGACGAcaUCUGGaaucUGCGCAAgGAUGa -3'
miRNA:   3'- gCGUCUGCU--AGACC----AUGCGUUaUUGC- -5'
2367 3' -48.6 NC_001416.1 + 10916 0.67 0.953171
Target:  5'- gCGguGGCGA-CcGGUGCGC--UGGCGu -3'
miRNA:   3'- -GCguCUGCUaGaCCAUGCGuuAUUGC- -5'
2367 3' -48.6 NC_001416.1 + 10606 0.66 0.965418
Target:  5'- aGuCAGGCGucauuuuUCUGGUACGgaaAGUGAUGc -3'
miRNA:   3'- gC-GUCUGCu------AGACCAUGCg--UUAUUGC- -5'
2367 3' -48.6 NC_001416.1 + 10543 0.7 0.851804
Target:  5'- gGUAGGCGAUCUGGU-CGU--UGAUu -3'
miRNA:   3'- gCGUCUGCUAGACCAuGCGuuAUUGc -5'
2367 3' -48.6 NC_001416.1 + 8017 0.66 0.957538
Target:  5'- aGCAaaacGGCGGUgcCUGGUGCcgccGCAAUGGCc -3'
miRNA:   3'- gCGU----CUGCUA--GACCAUG----CGUUAUUGc -5'
2367 3' -48.6 NC_001416.1 + 3854 0.68 0.920694
Target:  5'- uGCAGACGGcUCaGGaUACG-GAUAACGg -3'
miRNA:   3'- gCGUCUGCU-AGaCC-AUGCgUUAUUGC- -5'
2367 3' -48.6 NC_001416.1 + 3008 1.11 0.003303
Target:  5'- gCGCAGACGAUCUGGUACGCAAUAACGg -3'
miRNA:   3'- -GCGUCUGCUAGACCAUGCGUUAUUGC- -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.