miRNA display CGI


Results 1 - 16 of 16 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
13044 5' -61.5 NC_003390.1 + 38400 0.66 0.368757
Target:  5'- gGCCCCCAaggcccagaaGGcCCUCAAGGUCUcCAa -3'
miRNA:   3'- -CGGGGGUc---------CCaGGAGUUCCGGAcGUc -5'
13044 5' -61.5 NC_003390.1 + 27268 0.66 0.368757
Target:  5'- uGCCagCCAGGGgcucagCCUCAGccucaGCCUGCu- -3'
miRNA:   3'- -CGGg-GGUCCCa-----GGAGUUc----CGGACGuc -5'
13044 5' -61.5 NC_003390.1 + 37979 0.66 0.335887
Target:  5'- -aCCCUGGGGaCCUUcAGGCCcgGUAGc -3'
miRNA:   3'- cgGGGGUCCCaGGAGuUCCGGa-CGUC- -5'
13044 5' -61.5 NC_003390.1 + 744 0.66 0.335887
Target:  5'- uGCCCggUCA-GGUCgUCAuGGCUUGCAGc -3'
miRNA:   3'- -CGGG--GGUcCCAGgAGUuCCGGACGUC- -5'
13044 5' -61.5 NC_003390.1 + 39505 0.67 0.28364
Target:  5'- aCCCCCgAGGGUCUUCucccGCCUGagAGg -3'
miRNA:   3'- cGGGGG-UCCCAGGAGuuc-CGGACg-UC- -5'
13044 5' -61.5 NC_003390.1 + 38136 0.67 0.276723
Target:  5'- gGCCCCCAGGGaCCUaAAGGUgacaCAGg -3'
miRNA:   3'- -CGGGGGUCCCaGGAgUUCCGgac-GUC- -5'
13044 5' -61.5 NC_003390.1 + 38240 0.69 0.220445
Target:  5'- gGCUCCUGGGaGUcCCUgAGGGCCUuGUAGc -3'
miRNA:   3'- -CGGGGGUCC-CA-GGAgUUCCGGA-CGUC- -5'
13044 5' -61.5 NC_003390.1 + 38159 0.69 0.209343
Target:  5'- gGCCCCUGGaaGGcCCUguGGGCCcUGUAGa -3'
miRNA:   3'- -CGGGGGUC--CCaGGAguUCCGG-ACGUC- -5'
13044 5' -61.5 NC_003390.1 + 38229 0.69 0.209343
Target:  5'- gGCCCaCAGGG-CCUUccaGGGGCCgauggUGCAGa -3'
miRNA:   3'- -CGGGgGUCCCaGGAG---UUCCGG-----ACGUC- -5'
13044 5' -61.5 NC_003390.1 + 38271 0.7 0.174223
Target:  5'- --gCCCAGGGUCCacagggaaucCAGGGCgaGCAGg -3'
miRNA:   3'- cggGGGUCCCAGGa---------GUUCCGgaCGUC- -5'
13044 5' -61.5 NC_003390.1 + 38310 0.71 0.160845
Target:  5'- gGCCCUCAGGGacUCC-CAGGaGCCgauggaGCAGa -3'
miRNA:   3'- -CGGGGGUCCC--AGGaGUUC-CGGa-----CGUC- -5'
13044 5' -61.5 NC_003390.1 + 10209 0.72 0.126109
Target:  5'- aGCUggCCGGGGUCCUCAagcAGGCCUaugGCAa -3'
miRNA:   3'- -CGGg-GGUCCCAGGAGU---UCCGGA---CGUc -5'
13044 5' -61.5 NC_003390.1 + 43701 0.73 0.115845
Target:  5'- gGCCUgUGGGG-CCUCAggagcgcuucuauAGGCCUGUAGg -3'
miRNA:   3'- -CGGGgGUCCCaGGAGU-------------UCCGGACGUC- -5'
13044 5' -61.5 NC_003390.1 + 37849 0.77 0.054546
Target:  5'- gGUCCUCAGGGUCCUgAAGGuCCUGaAGg -3'
miRNA:   3'- -CGGGGGUCCCAGGAgUUCC-GGACgUC- -5'
13044 5' -61.5 NC_003390.1 + 38037 0.83 0.019394
Target:  5'- gGUCCCCAGGGUCCUCAAGGUaaccCAGg -3'
miRNA:   3'- -CGGGGGUCCCAGGAGUUCCGgac-GUC- -5'
13044 5' -61.5 NC_003390.1 + 38355 1.1 0.000153
Target:  5'- gGCCCCCAGGGUCCUCAAGGCCUGCAGg -3'
miRNA:   3'- -CGGGGGUCCCAGGAGUUCCGGACGUC- -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.