miRNA display CGI


Results 1 - 20 of 204 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
13999 3' -55.5 NC_003521.1 + 32363 0.66 0.952912
Target:  5'- gGCGGGAcGGGGCuuuuGGUGGC-GCGu-GGCc -3'
miRNA:   3'- -CGCUCU-CCCCG----UCAUCGuCGUucUCG- -5'
13999 3' -55.5 NC_003521.1 + 123607 0.66 0.960332
Target:  5'- uGCGucgcAGGGGCAGccgccGUAGCAGcGGCg -3'
miRNA:   3'- -CGCuc--UCCCCGUCau---CGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 86609 0.66 0.963721
Target:  5'- aGCGcucGuGGuGGCGGUAG-AGCAGGaAGCc -3'
miRNA:   3'- -CGCu--CuCC-CCGUCAUCgUCGUUC-UCG- -5'
13999 3' -55.5 NC_003521.1 + 145870 0.66 0.952912
Target:  5'- gGCGGcGGGcGGCgccgacgacgAGgccgccGGCGGCGGGAGCa -3'
miRNA:   3'- -CGCUcUCC-CCG----------UCa-----UCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 193137 0.66 0.956731
Target:  5'- aGUGcAGAGGGGa---GGCucauGGCGGGGGCg -3'
miRNA:   3'- -CGC-UCUCCCCgucaUCG----UCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 92075 0.66 0.960332
Target:  5'- gGCGGaccGGGGGuCGGgGGguGCGcAGGGCg -3'
miRNA:   3'- -CGCUc--UCCCC-GUCaUCguCGU-UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 141969 0.66 0.952912
Target:  5'- gGCGAcGAGcGuCAGgagcuGCAGCGGGAGCu -3'
miRNA:   3'- -CGCU-CUCcCcGUCau---CGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 71275 0.66 0.952912
Target:  5'- gGCG-GAGGcGGgGGccGCGGCAcGGGCc -3'
miRNA:   3'- -CGCuCUCC-CCgUCauCGUCGUuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 83315 0.66 0.960332
Target:  5'- uGCGAcAGGGG--GUAGCGGUcGGuGCa -3'
miRNA:   3'- -CGCUcUCCCCguCAUCGUCGuUCuCG- -5'
13999 3' -55.5 NC_003521.1 + 213600 0.66 0.952518
Target:  5'- gGCGAugaccaggcuguuGGGGuGGCGGUcgccgcGCAGCAggaugaaacaccAGAGCa -3'
miRNA:   3'- -CGCU-------------CUCC-CCGUCAu-----CGUCGU------------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 93 0.66 0.963721
Target:  5'- cGCGGGcgugcaGGGaGGCcgaAGcGGCGGCcGGAGCc -3'
miRNA:   3'- -CGCUC------UCC-CCG---UCaUCGUCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 193307 0.66 0.960332
Target:  5'- gGCGc-GGGGGUGGUGGgcaCGGUggGGGUg -3'
miRNA:   3'- -CGCucUCCCCGUCAUC---GUCGuuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 29 0.66 0.956731
Target:  5'- gGgGuGGGGGGguGUuuuuGGCGG-GGGGGCa -3'
miRNA:   3'- -CgCuCUCCCCguCA----UCGUCgUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 101971 0.66 0.9571
Target:  5'- uGCGAGAuGGGGUccagcaggcGGU-GCAGCugcguguccaggcacAGGGCg -3'
miRNA:   3'- -CGCUCU-CCCCG---------UCAuCGUCGu--------------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 121116 0.66 0.962727
Target:  5'- gGUGGGguguucgcuguacuGGGGGCcgc-GCAGCAuGAGCa -3'
miRNA:   3'- -CGCUC--------------UCCCCGucauCGUCGUuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 58880 0.66 0.952912
Target:  5'- aCGAGAGGuGGC----GCGGCGAGucGCa -3'
miRNA:   3'- cGCUCUCC-CCGucauCGUCGUUCu-CG- -5'
13999 3' -55.5 NC_003521.1 + 119021 0.66 0.961713
Target:  5'- gGCGAacacggauucggauaGGGcGGGCGGcgucgGGguGCuGGAGCg -3'
miRNA:   3'- -CGCU---------------CUC-CCCGUCa----UCguCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 166834 0.66 0.952122
Target:  5'- gGCGAcgacgguGAGGauacgcaGGCGGUGGCgcGGCGGGcGCa -3'
miRNA:   3'- -CGCU-------CUCC-------CCGUCAUCG--UCGUUCuCG- -5'
13999 3' -55.5 NC_003521.1 + 113567 0.66 0.952912
Target:  5'- cGCGAGGaggacgcgguGGGGCug-GGCcuCGGGGGCa -3'
miRNA:   3'- -CGCUCU----------CCCCGucaUCGucGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 240578 0.66 0.956731
Target:  5'- gGgGuGGGGGGguGUuuuuGGCGG-GGGGGCa -3'
miRNA:   3'- -CgCuCUCCCCguCA----UCGUCgUUCUCG- -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.