miRNA display CGI


Results 1 - 20 of 65 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
24678 3' -59.7 NC_005264.1 + 110267 1.1 0.00119
Target:  5'- cGCGCGUAGGCAGCCGUGCCAUCCGCAc -3'
miRNA:   3'- -CGCGCAUCCGUCGGCACGGUAGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 34144 0.74 0.320208
Target:  5'- gGCGCGUAGGCuucgGGUCGUGgUA-CCGCGc -3'
miRNA:   3'- -CGCGCAUCCG----UCGGCACgGUaGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 11648 0.73 0.372951
Target:  5'- aGCGCGgcaGGGCuGCUGUcGUCGUCgCGCAa -3'
miRNA:   3'- -CGCGCa--UCCGuCGGCA-CGGUAG-GCGU- -5'
24678 3' -59.7 NC_005264.1 + 83859 0.73 0.372951
Target:  5'- aGCGCauacGUAGGgcuCGGCCGUGCCGaacUUCGCGc -3'
miRNA:   3'- -CGCG----CAUCC---GUCGGCACGGU---AGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 135109 0.72 0.397293
Target:  5'- cUGCu--GGguGCCGUGCCGUUCGCc -3'
miRNA:   3'- cGCGcauCCguCGGCACGGUAGGCGu -5'
24678 3' -59.7 NC_005264.1 + 159936 0.72 0.431294
Target:  5'- aGCGUGacaaGGGUGGcCCGUGCgGUUCGCAg -3'
miRNA:   3'- -CGCGCa---UCCGUC-GGCACGgUAGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 90824 0.72 0.440057
Target:  5'- cGCGUGU-GGCGGCCGcGCaCGUCgaGCAa -3'
miRNA:   3'- -CGCGCAuCCGUCGGCaCG-GUAGg-CGU- -5'
24678 3' -59.7 NC_005264.1 + 69404 0.7 0.504043
Target:  5'- gGCGgGUAGGCGcGCC-UGCCG-CCGUc -3'
miRNA:   3'- -CGCgCAUCCGU-CGGcACGGUaGGCGu -5'
24678 3' -59.7 NC_005264.1 + 83231 0.7 0.504043
Target:  5'- uGCGCGUGGGC-GUCuagGCCG-CCGCu -3'
miRNA:   3'- -CGCGCAUCCGuCGGca-CGGUaGGCGu -5'
24678 3' -59.7 NC_005264.1 + 4498 0.7 0.51352
Target:  5'- gGCGCGgu-GCGGCCGcuUGUguUCCGCGu -3'
miRNA:   3'- -CGCGCaucCGUCGGC--ACGguAGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 76303 0.7 0.51352
Target:  5'- gGCGCGgggGGGCuGCUG-GCuCAUUCGCu -3'
miRNA:   3'- -CGCGCa--UCCGuCGGCaCG-GUAGGCGu -5'
24678 3' -59.7 NC_005264.1 + 149670 0.7 0.51352
Target:  5'- aGCGCGUAGGUcGUCGUcGUCGUCgucguCGCGa -3'
miRNA:   3'- -CGCGCAUCCGuCGGCA-CGGUAG-----GCGU- -5'
24678 3' -59.7 NC_005264.1 + 65562 0.69 0.581607
Target:  5'- uGCGCG-AGGCAGCggccacuacCGUGCCAaggCCcgGCGg -3'
miRNA:   3'- -CGCGCaUCCGUCG---------GCACGGUa--GG--CGU- -5'
24678 3' -59.7 NC_005264.1 + 113053 0.69 0.591519
Target:  5'- aCGCGgAGGUAGuCCGUGCCcUCCu-- -3'
miRNA:   3'- cGCGCaUCCGUC-GGCACGGuAGGcgu -5'
24678 3' -59.7 NC_005264.1 + 71851 0.69 0.601458
Target:  5'- aCGCGUcgcGGCGGCgGUGU--UCCGCGa -3'
miRNA:   3'- cGCGCAu--CCGUCGgCACGguAGGCGU- -5'
24678 3' -59.7 NC_005264.1 + 156150 0.69 0.611419
Target:  5'- aGgGCG-AGGCGGCCGUcucgGCCucgCUGCu -3'
miRNA:   3'- -CgCGCaUCCGUCGGCA----CGGua-GGCGu -5'
24678 3' -59.7 NC_005264.1 + 37123 0.69 0.611419
Target:  5'- aGgGCG-AGGCGGCCGUcucgGCCucgCUGCu -3'
miRNA:   3'- -CgCGCaUCCGUCGGCA----CGGua-GGCGu -5'
24678 3' -59.7 NC_005264.1 + 104928 0.69 0.611419
Target:  5'- -gGCGgcGGaaccccCAGCCGUGCCAagCGCc -3'
miRNA:   3'- cgCGCauCC------GUCGGCACGGUagGCGu -5'
24678 3' -59.7 NC_005264.1 + 2573 0.68 0.63038
Target:  5'- -aGCGUcacaugaGGGUGGCCGUGCauaacCCGCGc -3'
miRNA:   3'- cgCGCA-------UCCGUCGGCACGgua--GGCGU- -5'
24678 3' -59.7 NC_005264.1 + 55616 0.68 0.631379
Target:  5'- cCGCGgcuGGC-GCCGaaUGCCAaCCGCGc -3'
miRNA:   3'- cGCGCau-CCGuCGGC--ACGGUaGGCGU- -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.