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
31453 3' -46.8 NC_006646.1 + 29218 0.66 0.958579
Target:  5'- gUCGGACCUGaUCAgguaaCUGGUUcauuuuAGACu -3'
miRNA:   3'- -AGUCUGGACaAGUaua--GACUAG------UCUG- -5'
31453 3' -46.8 NC_006646.1 + 1045 0.67 0.932474
Target:  5'- gUCGGAU---UUCA-GUCUGAUCAGAUa -3'
miRNA:   3'- -AGUCUGgacAAGUaUAGACUAGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 16603 0.69 0.845571
Target:  5'- aCAGAgCUGUUCAUucgcagcUCUGAauuauucauuaUCGGACc -3'
miRNA:   3'- aGUCUgGACAAGUAu------AGACU-----------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1124 0.74 0.580173
Target:  5'- aUCAaGCCUGUUCAUGUCUGcUCAu-- -3'
miRNA:   3'- -AGUcUGGACAAGUAUAGACuAGUcug -5'
31453 3' -46.8 NC_006646.1 + 1101 0.74 0.568057
Target:  5'- aCAGACaUGgaCAgGUCUGAUCAGGCc -3'
miRNA:   3'- aGUCUGgACaaGUaUAGACUAGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1282 0.75 0.540455
Target:  5'- uUCAugUCUGUUCAUGUCUGAaacauuaaauacgcUCAGACc -3'
miRNA:   3'- -AGUcuGGACAAGUAUAGACU--------------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1028 0.76 0.474285
Target:  5'- aUCAGGCCUGaaaUUAggcCUGAUCAGACc -3'
miRNA:   3'- -AGUCUGGACa--AGUauaGACUAGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1249 0.77 0.409306
Target:  5'- aCAGGCUUGaUCAgAUCUGAUCAGGu -3'
miRNA:   3'- aGUCUGGACaAGUaUAGACUAGUCUg -5'
31453 3' -46.8 NC_006646.1 + 1165 0.78 0.378964
Target:  5'- aCAGGCUUGaUCAgGUCUGAUCAGGu -3'
miRNA:   3'- aGUCUGGACaAGUaUAGACUAGUCUg -5'
31453 3' -46.8 NC_006646.1 + 1368 0.78 0.376013
Target:  5'- aUCAGGUCUGUUCAgGUCUGAgcguauuuaauguuUCAGACa -3'
miRNA:   3'- -AGUCUGGACAAGUaUAGACU--------------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1313 0.8 0.297365
Target:  5'- aUAGGCUUGaUCAgGUCUGAUCAGGCc -3'
miRNA:   3'- aGUCUGGACaAGUaUAGACUAGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1219 0.81 0.263464
Target:  5'- cCAuGCCUGUUCAUGUCUGAagcauuaaauacgcUCAGGCc -3'
miRNA:   3'- aGUcUGGACAAGUAUAGACU--------------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1070 0.84 0.165742
Target:  5'- uUCAGGCCUGaUCAUAcCUGAUCAGGu -3'
miRNA:   3'- -AGUCUGGACaAGUAUaGACUAGUCUg -5'
31453 3' -46.8 NC_006646.1 + 1070 0.85 0.154512
Target:  5'- uUCAuGCCUGUUCAUGUCUGAaccguuagauacgcUCAGACc -3'
miRNA:   3'- -AGUcUGGACAAGUAUAGACU--------------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 1154 0.85 0.154512
Target:  5'- uUCAuGCCUGUUCAUAUCUGAagcaucaaauacgcUCAGACc -3'
miRNA:   3'- -AGUcUGGACAAGUAUAGACU--------------AGUCUG- -5'
31453 3' -46.8 NC_006646.1 + 977 0.96 0.027642
Target:  5'- aUCAGACCUGUUCAUAUCUGAU-AGACc -3'
miRNA:   3'- -AGUCUGGACAAGUAUAGACUAgUCUG- -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.