miRNA display CGI


Results 1 - 15 of 15 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
1388 5' -55.9 NC_001335.1 + 39295 0.66 0.650978
Target:  5'- --aGGGcGGCgaagAGGU-CUCCGGGGUACc -3'
miRNA:   3'- gugUCCaUCG----UCCAuGAGGCUCCGUG- -5'
1388 5' -55.9 NC_001335.1 + 20600 0.66 0.638744
Target:  5'- uGCGGuGUuGCAGccucuGUACUCCGAuguguucGGCGCg -3'
miRNA:   3'- gUGUC-CAuCGUC-----CAUGAGGCU-------CCGUG- -5'
1388 5' -55.9 NC_001335.1 + 6870 0.66 0.606489
Target:  5'- aGCAGGUAcGCcuGGUcCUCUGGuGGUACg -3'
miRNA:   3'- gUGUCCAU-CGu-CCAuGAGGCU-CCGUG- -5'
1388 5' -55.9 NC_001335.1 + 30806 0.66 0.606489
Target:  5'- uGCGGGUAGCaauacuGGGUACUUCucucGGGCu- -3'
miRNA:   3'- gUGUCCAUCG------UCCAUGAGGc---UCCGug -5'
1388 5' -55.9 NC_001335.1 + 26243 0.67 0.551445
Target:  5'- aGC-GGcAGCGGGcuccagGCcCCGAGGCGCg -3'
miRNA:   3'- gUGuCCaUCGUCCa-----UGaGGCUCCGUG- -5'
1388 5' -55.9 NC_001335.1 + 29870 0.68 0.498011
Target:  5'- -cCGGcGUacAGCAGGUACUCCG-GGUg- -3'
miRNA:   3'- guGUC-CA--UCGUCCAUGAGGCuCCGug -5'
1388 5' -55.9 NC_001335.1 + 12827 0.68 0.487595
Target:  5'- gAgAGGUAGCccuccGGGuUACgcaCGAGGCGCa -3'
miRNA:   3'- gUgUCCAUCG-----UCC-AUGag-GCUCCGUG- -5'
1388 5' -55.9 NC_001335.1 + 26198 0.69 0.447019
Target:  5'- gACAGGUAcuuCGGcGUGCUCCGAGuGCuGCu -3'
miRNA:   3'- gUGUCCAUc--GUC-CAUGAGGCUC-CG-UG- -5'
1388 5' -55.9 NC_001335.1 + 5675 0.69 0.444051
Target:  5'- -uCAGGUcaccaagggcgucgAGCAGGUGCUCgCGgccAGGCAg -3'
miRNA:   3'- guGUCCA--------------UCGUCCAUGAG-GC---UCCGUg -5'
1388 5' -55.9 NC_001335.1 + 8680 0.71 0.361415
Target:  5'- gCAguGGUGGCAGGccaacaaccucgACaUCGAGGCACc -3'
miRNA:   3'- -GUguCCAUCGUCCa-----------UGaGGCUCCGUG- -5'
1388 5' -55.9 NC_001335.1 + 38820 0.72 0.321506
Target:  5'- gGCGGGUucAGCAGGUACU-CGAuGGCcCg -3'
miRNA:   3'- gUGUCCA--UCGUCCAUGAgGCU-CCGuG- -5'
1388 5' -55.9 NC_001335.1 + 46471 0.72 0.305878
Target:  5'- gGCGGGggAGCGuuGGUGCUcuaCCGAGGCGa -3'
miRNA:   3'- gUGUCCa-UCGU--CCAUGA---GGCUCCGUg -5'
1388 5' -55.9 NC_001335.1 + 44478 0.74 0.224274
Target:  5'- gGCGGGUu-CAGGUACgucccCCGAGGCAUc -3'
miRNA:   3'- gUGUCCAucGUCCAUGa----GGCUCCGUG- -5'
1388 5' -55.9 NC_001335.1 + 18708 0.78 0.115618
Target:  5'- -uCAGGUAGCGGGUACcggagUCCGGGGUg- -3'
miRNA:   3'- guGUCCAUCGUCCAUG-----AGGCUCCGug -5'
1388 5' -55.9 NC_001335.1 + 33711 1.08 0.000834
Target:  5'- uCACAGGUAGCAGGUACUCCGAGGCACc -3'
miRNA:   3'- -GUGUCCAUCGUCCAUGAGGCUCCGUG- -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.