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
22338 3' -59.3 NC_005045.1 + 22499 0.66 0.458438
Target:  5'- -aGGACGCCGAGauggGCGaUUACgUGCCa- -3'
miRNA:   3'- gcUCUGCGGCUCg---CGC-AGUG-ACGGcu -5'
22338 3' -59.3 NC_005045.1 + 18930 0.66 0.448711
Target:  5'- aCGAGAUcaUCGAGCGCGUCuucaACU-CCGGg -3'
miRNA:   3'- -GCUCUGc-GGCUCGCGCAG----UGAcGGCU- -5'
22338 3' -59.3 NC_005045.1 + 20107 0.66 0.448711
Target:  5'- cCGAGGCuGUCGAGUaCGUCACUcuguacgagGCCa- -3'
miRNA:   3'- -GCUCUG-CGGCUCGcGCAGUGA---------CGGcu -5'
22338 3' -59.3 NC_005045.1 + 15682 0.67 0.401867
Target:  5'- gCGcAGugGCUGGGCgGCGaCACcGCUGAc -3'
miRNA:   3'- -GC-UCugCGGCUCG-CGCaGUGaCGGCU- -5'
22338 3' -59.3 NC_005045.1 + 17308 0.67 0.366704
Target:  5'- --cGACGCCGAGC-CGaccaucCGCUGcCCGAa -3'
miRNA:   3'- gcuCUGCGGCUCGcGCa-----GUGAC-GGCU- -5'
22338 3' -59.3 NC_005045.1 + 15140 0.68 0.35825
Target:  5'- gCGGGACGuuG-GUGUGUgAC-GCCGAc -3'
miRNA:   3'- -GCUCUGCggCuCGCGCAgUGaCGGCU- -5'
22338 3' -59.3 NC_005045.1 + 25609 0.68 0.35825
Target:  5'- gGAGAuCGCacAGCGCGUCAUUGCg-- -3'
miRNA:   3'- gCUCU-GCGgcUCGCGCAGUGACGgcu -5'
22338 3' -59.3 NC_005045.1 + 5689 0.68 0.322697
Target:  5'- gGAGguGCGCCuggauaacgugGAGCGCGUCAgcaccuacgacuaUGCCGAu -3'
miRNA:   3'- gCUC--UGCGG-----------CUCGCGCAGUg------------ACGGCU- -5'
22338 3' -59.3 NC_005045.1 + 6753 0.7 0.26764
Target:  5'- gCGAGuauCGCCGAGUGUGUgcucCACcuccGCCGGa -3'
miRNA:   3'- -GCUCu--GCGGCUCGCGCA----GUGa---CGGCU- -5'
22338 3' -59.3 NC_005045.1 + 7689 0.7 0.24184
Target:  5'- --cGACGCgggcuggauUGGGCGCGcUACUGCCGAc -3'
miRNA:   3'- gcuCUGCG---------GCUCGCGCaGUGACGGCU- -5'
22338 3' -59.3 NC_005045.1 + 5292 0.71 0.229736
Target:  5'- -cAGGcCGCCGAGCGCG-CACgucGCUGGg -3'
miRNA:   3'- gcUCU-GCGGCUCGCGCaGUGa--CGGCU- -5'
22338 3' -59.3 NC_005045.1 + 22650 1.09 0.000345
Target:  5'- gCGAGACGCCGAGCGCGUCACUGCCGAg -3'
miRNA:   3'- -GCUCUGCGGCUCGCGCAGUGACGGCU- -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.