miRNA display CGI


Results 1 - 20 of 37 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
18782 3' -59.5 NC_004683.1 + 44939 0.66 0.533761
Target:  5'- -cUCGgCCUccaGGCCGGGCCaccacGGCGAUu -3'
miRNA:   3'- ccAGCgGGAa--CUGGUCCGG-----CCGCUAc -5'
18782 3' -59.5 NC_004683.1 + 8824 0.66 0.533761
Target:  5'- cGUUGCCCUc-ACCGaacGcGCCGGCGAg- -3'
miRNA:   3'- cCAGCGGGAacUGGU---C-CGGCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 31533 0.66 0.523506
Target:  5'- uGUCGgCgUcGGCCAcGCCGGCGAg- -3'
miRNA:   3'- cCAGCgGgAaCUGGUcCGGCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 13133 0.66 0.513328
Target:  5'- cGUCGCCUgc-AUguGGCUGGCGuUGa -3'
miRNA:   3'- cCAGCGGGaacUGguCCGGCCGCuAC- -5'
18782 3' -59.5 NC_004683.1 + 32923 0.66 0.512314
Target:  5'- -cUCGCCC-UGGCCGgauuccgcuuGGCCGagaucagcggucuGCGAUGg -3'
miRNA:   3'- ccAGCGGGaACUGGU----------CCGGC-------------CGCUAC- -5'
18782 3' -59.5 NC_004683.1 + 5429 0.66 0.503231
Target:  5'- cGUCGgCCUUGGUCAGGCCcauGGCa--- -3'
miRNA:   3'- cCAGCgGGAACUGGUCCGG---CCGcuac -5'
18782 3' -59.5 NC_004683.1 + 51260 0.66 0.503231
Target:  5'- ---gGCCCUcGGCUgggagaAGGCCGGUGAg- -3'
miRNA:   3'- ccagCGGGAaCUGG------UCCGGCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 4008 0.66 0.493222
Target:  5'- gGGUCGaCCUcuucagcgaUGcuGCgCAGGCUGGCGAUc -3'
miRNA:   3'- -CCAGCgGGA---------AC--UG-GUCCGGCCGCUAc -5'
18782 3' -59.5 NC_004683.1 + 5937 0.66 0.482318
Target:  5'- aGGUUGUUCgccaGCCAGGCgccuuggCGGCGGUGc -3'
miRNA:   3'- -CCAGCGGGaac-UGGUCCG-------GCCGCUAC- -5'
18782 3' -59.5 NC_004683.1 + 5948 0.67 0.473485
Target:  5'- cGGcgaGCCCUcccagcUG-CUGGGCCGGcCGGUGg -3'
miRNA:   3'- -CCag-CGGGA------ACuGGUCCGGCC-GCUAC- -5'
18782 3' -59.5 NC_004683.1 + 46926 0.67 0.473485
Target:  5'- uGGUgugUGCCCgacgcggUGACCGuGGCCaGCgGAUGa -3'
miRNA:   3'- -CCA---GCGGGa------ACUGGU-CCGGcCG-CUAC- -5'
18782 3' -59.5 NC_004683.1 + 42601 0.67 0.463766
Target:  5'- cGGUCGUCC--GGCUgggguGGUCGGCGAc- -3'
miRNA:   3'- -CCAGCGGGaaCUGGu----CCGGCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 18642 0.67 0.454153
Target:  5'- aGGUCGCCCg-GugUcGGCaGGCuGAUGg -3'
miRNA:   3'- -CCAGCGGGaaCugGuCCGgCCG-CUAC- -5'
18782 3' -59.5 NC_004683.1 + 3328 0.67 0.454153
Target:  5'- aGGUCGCCgc-GGCCAGGCCcuCGGa- -3'
miRNA:   3'- -CCAGCGGgaaCUGGUCCGGccGCUac -5'
18782 3' -59.5 NC_004683.1 + 21334 0.67 0.454153
Target:  5'- aGGUCgguGCCaaa---CAGGCCGGCGGUa -3'
miRNA:   3'- -CCAG---CGGgaacugGUCCGGCCGCUAc -5'
18782 3' -59.5 NC_004683.1 + 22498 0.67 0.444649
Target:  5'- cGUCGCC---GACCAGGCCGaGcCGGa- -3'
miRNA:   3'- cCAGCGGgaaCUGGUCCGGC-C-GCUac -5'
18782 3' -59.5 NC_004683.1 + 26286 0.67 0.435257
Target:  5'- cGG-CGUUCUcGACCuGGCgGGCGAg- -3'
miRNA:   3'- -CCaGCGGGAaCUGGuCCGgCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 21286 0.68 0.416824
Target:  5'- uGGUCGCCCagcAgCAGGCgGGgGAUc -3'
miRNA:   3'- -CCAGCGGGaacUgGUCCGgCCgCUAc -5'
18782 3' -59.5 NC_004683.1 + 25638 0.68 0.407788
Target:  5'- cGUUGCCgaccgcGGCCAGGgCGGCGAc- -3'
miRNA:   3'- cCAGCGGgaa---CUGGUCCgGCCGCUac -5'
18782 3' -59.5 NC_004683.1 + 31502 0.68 0.407788
Target:  5'- -cUCGCCUggGACCAGGCguaGGcCGAc- -3'
miRNA:   3'- ccAGCGGGaaCUGGUCCGg--CC-GCUac -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.