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
28560 3' -55.6 NC_005946.1 + 79464 0.66 0.862385
Target:  5'- aGuGCGUCGAgGgguGGGCCgggUGGAcGCu -3'
miRNA:   3'- aCuCGUAGCUgU---CCCGGagaACCU-CG- -5'
28560 3' -55.6 NC_005946.1 + 103004 0.66 0.862385
Target:  5'- gGAGCAaaGGgAGGGCCg---GGAGa -3'
miRNA:   3'- aCUCGUagCUgUCCCGGagaaCCUCg -5'
28560 3' -55.6 NC_005946.1 + 20795 0.66 0.854428
Target:  5'- aGaAGC-UCGACAGG--CUCcUGGAGCa -3'
miRNA:   3'- aC-UCGuAGCUGUCCcgGAGaACCUCG- -5'
28560 3' -55.6 NC_005946.1 + 97002 0.66 0.846256
Target:  5'- aGGGCGUUgcugcugcugGGCAGGGCgUCUcuGAGUc -3'
miRNA:   3'- aCUCGUAG----------CUGUCCCGgAGAacCUCG- -5'
28560 3' -55.6 NC_005946.1 + 36349 0.66 0.837877
Target:  5'- gUGGGCcgCGGCGGcGGCCcacUCUgGGAa- -3'
miRNA:   3'- -ACUCGuaGCUGUC-CCGG---AGAaCCUcg -5'
28560 3' -55.6 NC_005946.1 + 76291 0.66 0.837877
Target:  5'- gGAGacgacgguccCGUCGGCccaaAGGGaCCUCagGGAGCc -3'
miRNA:   3'- aCUC----------GUAGCUG----UCCC-GGAGaaCCUCG- -5'
28560 3' -55.6 NC_005946.1 + 85019 0.67 0.811573
Target:  5'- aUGGGCAU-GAUggAGGGCaUCagGGAGCu -3'
miRNA:   3'- -ACUCGUAgCUG--UCCCGgAGaaCCUCG- -5'
28560 3' -55.6 NC_005946.1 + 36271 0.67 0.811573
Target:  5'- gUGGGCuccggCGGCGGuGGCgggUCUggggGGAGCg -3'
miRNA:   3'- -ACUCGua---GCUGUC-CCGg--AGAa---CCUCG- -5'
28560 3' -55.6 NC_005946.1 + 58148 0.67 0.798748
Target:  5'- cUGAGCAagGACAGGGCagagaagCUCgucaagcacuacacaGGAGUg -3'
miRNA:   3'- -ACUCGUagCUGUCCCG-------GAGaa-------------CCUCG- -5'
28560 3' -55.6 NC_005946.1 + 3898 0.67 0.783706
Target:  5'- ------cCGACAGGGCCUCgccgaauaugGGGGUa -3'
miRNA:   3'- acucguaGCUGUCCCGGAGaa--------CCUCG- -5'
28560 3' -55.6 NC_005946.1 + 46269 0.67 0.774114
Target:  5'- cUGAGCGUUGACAuuguccuucuuGGCCUCUgguUGGAc- -3'
miRNA:   3'- -ACUCGUAGCUGUc----------CCGGAGA---ACCUcg -5'
28560 3' -55.6 NC_005946.1 + 78988 0.67 0.764385
Target:  5'- -cGGCGUaCGcCAGGGCCg---GGGGCc -3'
miRNA:   3'- acUCGUA-GCuGUCCCGGagaaCCUCG- -5'
28560 3' -55.6 NC_005946.1 + 73575 0.68 0.754532
Target:  5'- aGAGCAU-GGCGGcccuCCUCaUGGAGCa -3'
miRNA:   3'- aCUCGUAgCUGUCcc--GGAGaACCUCG- -5'
28560 3' -55.6 NC_005946.1 + 2477 0.7 0.609042
Target:  5'- gUGAGCGcCGAguGGGaCUCgaggGGGGCc -3'
miRNA:   3'- -ACUCGUaGCUguCCCgGAGaa--CCUCG- -5'
28560 3' -55.6 NC_005946.1 + 28594 0.71 0.546313
Target:  5'- -uGGCGUCGGcCGGGGCCg--UGGuGCc -3'
miRNA:   3'- acUCGUAGCU-GUCCCGGagaACCuCG- -5'
28560 3' -55.6 NC_005946.1 + 76561 0.72 0.515692
Target:  5'- gUGGGag-CGGCuGGGCCUCa-GGGGCa -3'
miRNA:   3'- -ACUCguaGCUGuCCCGGAGaaCCUCG- -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.