miRNA display CGI


Results 1 - 20 of 27 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
28484 3' -51.7 NC_005946.1 + 103433 0.66 0.976052
Target:  5'- gCCGagUGGGACu-CgAGG-GGGGCCCc -3'
miRNA:   3'- -GGUagACCUUGuuGgUCUaCUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 103823 0.66 0.97334
Target:  5'- aCGUC-GGAG-AGCUaaAGAUGGGGaCCCa -3'
miRNA:   3'- gGUAGaCCUUgUUGG--UCUACUCC-GGG- -5'
28484 3' -51.7 NC_005946.1 + 49516 0.66 0.967262
Target:  5'- gCCGUCUGuGACGGCCgAGuccagGAG-CCCg -3'
miRNA:   3'- -GGUAGACcUUGUUGG-UCua---CUCcGGG- -5'
28484 3' -51.7 NC_005946.1 + 82819 0.66 0.967262
Target:  5'- -gGUCUGGAugAcGCUGGGacccgGAGGaCCCg -3'
miRNA:   3'- ggUAGACCUugU-UGGUCUa----CUCC-GGG- -5'
28484 3' -51.7 NC_005946.1 + 49457 0.66 0.96388
Target:  5'- aCC-UCUGGAGuCGAUgGGGUGcucauGGGCuCCa -3'
miRNA:   3'- -GGuAGACCUU-GUUGgUCUAC-----UCCG-GG- -5'
28484 3' -51.7 NC_005946.1 + 29312 0.66 0.96388
Target:  5'- uCCAUCcGGuGACAucgguCCGGuc-GGGCCCg -3'
miRNA:   3'- -GGUAGaCC-UUGUu----GGUCuacUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 45904 0.67 0.960262
Target:  5'- cCCuuUUUGGGcCGGCCAc--GGGGCCCg -3'
miRNA:   3'- -GGu-AGACCUuGUUGGUcuaCUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 54962 0.67 0.960262
Target:  5'- aCGUCUGGGuuuACAAucCCAGccaaucUGAGGCgCg -3'
miRNA:   3'- gGUAGACCU---UGUU--GGUCu-----ACUCCGgG- -5'
28484 3' -51.7 NC_005946.1 + 85026 0.67 0.956401
Target:  5'- ---cCUGGAGCAgGCCGccGcgGuGGCCCu -3'
miRNA:   3'- gguaGACCUUGU-UGGU--CuaCuCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 91083 0.67 0.956401
Target:  5'- gCCAUCacgaGGAGCccGGCCAGAgccaGGGCaCCc -3'
miRNA:   3'- -GGUAGa---CCUUG--UUGGUCUac--UCCG-GG- -5'
28484 3' -51.7 NC_005946.1 + 8259 0.67 0.951441
Target:  5'- cCCAgCUGGuuuGCAGCCAGGagcucgaccucgGGGGUCUu -3'
miRNA:   3'- -GGUaGACCu--UGUUGGUCUa-----------CUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 103193 0.67 0.943315
Target:  5'- uCCAUCaucGGAGCGACCAGAUuacagaacGAcaaGUCCg -3'
miRNA:   3'- -GGUAGa--CCUUGUUGGUCUA--------CUc--CGGG- -5'
28484 3' -51.7 NC_005946.1 + 100937 0.67 0.943315
Target:  5'- gCCAUCaGGccuccGACAACUAcGgcGAGGCCg -3'
miRNA:   3'- -GGUAGaCC-----UUGUUGGU-CuaCUCCGGg -5'
28484 3' -51.7 NC_005946.1 + 43769 0.68 0.938439
Target:  5'- uCCcgCUcacGGcGCAGCCAGGgagaGGGGCuCCg -3'
miRNA:   3'- -GGuaGA---CCuUGUUGGUCUa---CUCCG-GG- -5'
28484 3' -51.7 NC_005946.1 + 30854 0.68 0.927904
Target:  5'- gCCAaaggaggGGAccACGACCGGGUGAgcGGCCg -3'
miRNA:   3'- -GGUaga----CCU--UGUUGGUCUACU--CCGGg -5'
28484 3' -51.7 NC_005946.1 + 26443 0.68 0.922242
Target:  5'- gCGUCgagGGGugGGCCGGGUGgacgcuccuGGGCUg -3'
miRNA:   3'- gGUAGa--CCUugUUGGUCUAC---------UCCGGg -5'
28484 3' -51.7 NC_005946.1 + 3824 0.69 0.896985
Target:  5'- aCCGUCUcGGGGuCcgUCAGGcUGGGGUCCa -3'
miRNA:   3'- -GGUAGA-CCUU-GuuGGUCU-ACUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 81196 0.69 0.882824
Target:  5'- cCgGUUUGGGGgGGuugggcCCGGGUGGGGCCUc -3'
miRNA:   3'- -GgUAGACCUUgUU------GGUCUACUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 64447 0.7 0.878384
Target:  5'- ---cCUGGAgcGCAAUCAGGuuacccacggguccgUGAGGUCCg -3'
miRNA:   3'- gguaGACCU--UGUUGGUCU---------------ACUCCGGG- -5'
28484 3' -51.7 NC_005946.1 + 81530 0.7 0.867687
Target:  5'- cCCGUCUucuuguaGAACAgccuguggaaGCCGGGcuggGAGGCCCu -3'
miRNA:   3'- -GGUAGAc------CUUGU----------UGGUCUa---CUCCGGG- -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.