miRNA display CGI


Results 1 - 20 of 24 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
21016 5' -46 NC_004735.1 + 29076 0.66 0.999939
Target:  5'- gGUAGGCUgcaagAGAAGccGGAACCGUAcgcauuCCCu -3'
miRNA:   3'- -UAUUUGG-----UCUUCu-CCUUGGUAUu-----GGG- -5'
21016 5' -46 NC_004735.1 + 81015 0.66 0.999918
Target:  5'- gGUAGAUCAGAAGAaccGGAAUUcggGUuuCCCc -3'
miRNA:   3'- -UAUUUGGUCUUCU---CCUUGG---UAuuGGG- -5'
21016 5' -46 NC_004735.1 + 78170 0.66 0.999891
Target:  5'- uGUAAGCCGGGAGucguuGGAAUCGggAACa- -3'
miRNA:   3'- -UAUUUGGUCUUCu----CCUUGGUa-UUGgg -5'
21016 5' -46 NC_004735.1 + 73586 0.66 0.999891
Target:  5'- -cAAGCUgAGGAGuGGAGCCGUcggcGCUCa -3'
miRNA:   3'- uaUUUGG-UCUUCuCCUUGGUAu---UGGG- -5'
21016 5' -46 NC_004735.1 + 39891 0.66 0.999891
Target:  5'- -aAAACgGGAguGGAGGuugugaAACCuaAUAACCCg -3'
miRNA:   3'- uaUUUGgUCU--UCUCC------UUGG--UAUUGGG- -5'
21016 5' -46 NC_004735.1 + 63892 0.67 0.999691
Target:  5'- gAUAuuCCAG-AGAGGAguaGCC---ACCCa -3'
miRNA:   3'- -UAUuuGGUCuUCUCCU---UGGuauUGGG- -5'
21016 5' -46 NC_004735.1 + 129792 0.67 0.999502
Target:  5'- -aAAGCCGGGGuGGGAuCCcUGAUCCg -3'
miRNA:   3'- uaUUUGGUCUUcUCCUuGGuAUUGGG- -5'
21016 5' -46 NC_004735.1 + 59626 0.67 0.999502
Target:  5'- cUGAuCCAGuuGAGGAGCaugucaAACCCu -3'
miRNA:   3'- uAUUuGGUCuuCUCCUUGgua---UUGGG- -5'
21016 5' -46 NC_004735.1 + 129607 0.67 0.999502
Target:  5'- -----gCGGAAGAGGAAUUuuGUAAUCCc -3'
miRNA:   3'- uauuugGUCUUCUCCUUGG--UAUUGGG- -5'
21016 5' -46 NC_004735.1 + 120100 0.67 0.999502
Target:  5'- uAUAuuUgAGAAGGGGAAgCAUAGCUUu -3'
miRNA:   3'- -UAUuuGgUCUUCUCCUUgGUAUUGGG- -5'
21016 5' -46 NC_004735.1 + 9410 0.68 0.99922
Target:  5'- --cGACCGGGGcGGGugcACCAcAACCCa -3'
miRNA:   3'- uauUUGGUCUUcUCCu--UGGUaUUGGG- -5'
21016 5' -46 NC_004735.1 + 82657 0.68 0.998544
Target:  5'- gAUAAauACCAGAaacuuaauGGAGGAAauCCAUGAauaCCa -3'
miRNA:   3'- -UAUU--UGGUCU--------UCUCCUU--GGUAUUg--GG- -5'
21016 5' -46 NC_004735.1 + 16527 0.69 0.996923
Target:  5'- -aAGACCAaguGAAacaAGGAACCAUGACUUa -3'
miRNA:   3'- uaUUUGGU---CUUc--UCCUUGGUAUUGGG- -5'
21016 5' -46 NC_004735.1 + 8161 0.69 0.996923
Target:  5'- -cGAuCCAGAAGAGGGAUCGguAUUCg -3'
miRNA:   3'- uaUUuGGUCUUCUCCUUGGUauUGGG- -5'
21016 5' -46 NC_004735.1 + 11794 0.69 0.996923
Target:  5'- -gGAACCaccuucGGGAGGGGuACCAUAuugaaauccACCCc -3'
miRNA:   3'- uaUUUGG------UCUUCUCCuUGGUAU---------UGGG- -5'
21016 5' -46 NC_004735.1 + 98382 0.7 0.993044
Target:  5'- -----gCAGAAGAGGAGCgAUAuacguagacACCCc -3'
miRNA:   3'- uauuugGUCUUCUCCUUGgUAU---------UGGG- -5'
21016 5' -46 NC_004735.1 + 55425 0.71 0.985983
Target:  5'- -aAGGuuGGGAGcAGGAACCGgaGACCCa -3'
miRNA:   3'- uaUUUggUCUUC-UCCUUGGUa-UUGGG- -5'
21016 5' -46 NC_004735.1 + 76011 0.71 0.985983
Target:  5'- aGUAGACCacaaaGGAAGAGGAGuauUCA--GCCCa -3'
miRNA:   3'- -UAUUUGG-----UCUUCUCCUU---GGUauUGGG- -5'
21016 5' -46 NC_004735.1 + 9686 0.72 0.983462
Target:  5'- gGUGuGCCAGAaggggauguuguacAGAGGAGCCGgaaaauuauCCCa -3'
miRNA:   3'- -UAUuUGGUCU--------------UCUCCUUGGUauu------GGG- -5'
21016 5' -46 NC_004735.1 + 3229 0.73 0.968234
Target:  5'- ---uACUGGAAGGGGAGCCGUGgagcgaucACCa -3'
miRNA:   3'- uauuUGGUCUUCUCCUUGGUAU--------UGGg -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.