miRNA display CGI


Results 1 - 13 of 13 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
28553 3' -58.8 NC_005946.1 + 94727 0.66 0.692767
Target:  5'- --aGgGCACCGUccUCCCAGaggguuccacGggGGCCc -3'
miRNA:   3'- guaCgUGUGGCG--AGGGUC----------CuuCCGGa -5'
28553 3' -58.8 NC_005946.1 + 78081 0.66 0.682479
Target:  5'- --cGCACACUGUgaugccuuaugUCCCAGGugugccAGGGUCg -3'
miRNA:   3'- guaCGUGUGGCG-----------AGGGUCC------UUCCGGa -5'
28553 3' -58.8 NC_005946.1 + 34886 0.66 0.672148
Target:  5'- --aGCAggacCACCGaUCCCAGGGAcaggucccuGGCCa -3'
miRNA:   3'- guaCGU----GUGGCgAGGGUCCUU---------CCGGa -5'
28553 3' -58.8 NC_005946.1 + 94232 0.67 0.645153
Target:  5'- aCAUGguCGCCGaguggaagCCCAGGcuugacaggauuauaAAGGCCa -3'
miRNA:   3'- -GUACguGUGGCga------GGGUCC---------------UUCCGGa -5'
28553 3' -58.8 NC_005946.1 + 83162 0.67 0.619125
Target:  5'- uCAUGCugGauguCgGCUCCCacggaaaGGGAGGGUCa -3'
miRNA:   3'- -GUACGugU----GgCGAGGG-------UCCUUCCGGa -5'
28553 3' -58.8 NC_005946.1 + 35333 0.67 0.608725
Target:  5'- ----gGCAgCGUcucccaggucccaUCCCAGGGAGGCCg -3'
miRNA:   3'- guacgUGUgGCG-------------AGGGUCCUUCCGGa -5'
28553 3' -58.8 NC_005946.1 + 82550 0.68 0.578694
Target:  5'- -cUGCAcCACCGCcucgUCCGGGGagAGGCUg -3'
miRNA:   3'- guACGU-GUGGCGa---GGGUCCU--UCCGGa -5'
28553 3' -58.8 NC_005946.1 + 11286 0.68 0.577663
Target:  5'- aGUGCAC-CCgGCUCCCgucaggaugucuaGGGAcuccucgaAGGCCg -3'
miRNA:   3'- gUACGUGuGG-CGAGGG-------------UCCU--------UCCGGa -5'
28553 3' -58.8 NC_005946.1 + 104491 0.69 0.488292
Target:  5'- -cUGCcccaguuuacaACGCCGuCUCCCAGGAGGGa-- -3'
miRNA:   3'- guACG-----------UGUGGC-GAGGGUCCUUCCgga -5'
28553 3' -58.8 NC_005946.1 + 11006 0.72 0.354808
Target:  5'- --gGCACAggaaCGCUCCCAGGuuGGUCc -3'
miRNA:   3'- guaCGUGUg---GCGAGGGUCCuuCCGGa -5'
28553 3' -58.8 NC_005946.1 + 77710 0.72 0.339058
Target:  5'- aCAUGCuCACCaGCUUUgcgugCAGGGAGGCCa -3'
miRNA:   3'- -GUACGuGUGG-CGAGG-----GUCCUUCCGGa -5'
28553 3' -58.8 NC_005946.1 + 21833 0.72 0.323821
Target:  5'- --gGCACACUGC-CgCCAGGguGGCCg -3'
miRNA:   3'- guaCGUGUGGCGaG-GGUCCuuCCGGa -5'
28553 3' -58.8 NC_005946.1 + 79218 0.75 0.231467
Target:  5'- cUAUGgACGCCaGCUCuCCAucGGAAGGCCUu -3'
miRNA:   3'- -GUACgUGUGG-CGAG-GGU--CCUUCCGGA- -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.