miRNA display CGI


Results 1 - 20 of 21 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
27224 3' -57.7 NC_005832.1 + 91457 0.66 0.757957
Target:  5'- aGGCUCgCaGacuACUCGGCCGUCAUGGc -3'
miRNA:   3'- cCCGAG-GaCc--UGAGCCGGUAGUGUCu -5'
27224 3' -57.7 NC_005832.1 + 95007 0.66 0.757957
Target:  5'- -aGCUCCUGGAaaaGGCCG-CAgAGGu -3'
miRNA:   3'- ccCGAGGACCUgagCCGGUaGUgUCU- -5'
27224 3' -57.7 NC_005832.1 + 86205 0.66 0.738417
Target:  5'- aGGCUCCUGcugcuGCUCGGgCucaACAGAc -3'
miRNA:   3'- cCCGAGGACc----UGAGCCgGuagUGUCU- -5'
27224 3' -57.7 NC_005832.1 + 21098 0.67 0.708421
Target:  5'- gGGGC-CCguagGGACgcccCGGCCGUC-CuGAc -3'
miRNA:   3'- -CCCGaGGa---CCUGa---GCCGGUAGuGuCU- -5'
27224 3' -57.7 NC_005832.1 + 62419 0.67 0.67783
Target:  5'- aGGCUCCcgaGGACcagaGGCCgcugauguuugGUCACGGAu -3'
miRNA:   3'- cCCGAGGa--CCUGag--CCGG-----------UAGUGUCU- -5'
27224 3' -57.7 NC_005832.1 + 100099 0.67 0.67783
Target:  5'- uGGGCuccaaaaagUCCUGG-CUCcuGGUgGUCAUAGAc -3'
miRNA:   3'- -CCCG---------AGGACCuGAG--CCGgUAGUGUCU- -5'
27224 3' -57.7 NC_005832.1 + 46596 0.67 0.67783
Target:  5'- gGGGCuacuugcccuUCCaGGACggGGCCAUgACAGu -3'
miRNA:   3'- -CCCG----------AGGaCCUGagCCGGUAgUGUCu -5'
27224 3' -57.7 NC_005832.1 + 84685 0.68 0.667543
Target:  5'- aGGGCUag-GGACgaGGCCAUgGCAGc -3'
miRNA:   3'- -CCCGAggaCCUGagCCGGUAgUGUCu -5'
27224 3' -57.7 NC_005832.1 + 33098 0.68 0.646892
Target:  5'- uGGCUCCUGuuGACcggggUGGCCGUC-CAGu -3'
miRNA:   3'- cCCGAGGAC--CUGa----GCCGGUAGuGUCu -5'
27224 3' -57.7 NC_005832.1 + 85929 0.69 0.564449
Target:  5'- aGGCUCCUGGACcuuuugaggGGCCucauUCuCAGAg -3'
miRNA:   3'- cCCGAGGACCUGag-------CCGGu---AGuGUCU- -5'
27224 3' -57.7 NC_005832.1 + 7548 0.69 0.564449
Target:  5'- aGGGacCUCCUGGACcugcUGGCCGUCAgaccCAGc -3'
miRNA:   3'- -CCC--GAGGACCUGa---GCCGGUAGU----GUCu -5'
27224 3' -57.7 NC_005832.1 + 46978 0.7 0.554287
Target:  5'- uGGgaCCUGGACUCugaGGCCAgggagCugAGGa -3'
miRNA:   3'- cCCgaGGACCUGAG---CCGGUa----GugUCU- -5'
27224 3' -57.7 NC_005832.1 + 67025 0.7 0.54418
Target:  5'- aGGGC-CCUGG-CggCGGCCGUgGCgAGGg -3'
miRNA:   3'- -CCCGaGGACCuGa-GCCGGUAgUG-UCU- -5'
27224 3' -57.7 NC_005832.1 + 56457 0.7 0.504418
Target:  5'- uGGC-CCUGGGCUacguccccaGGCCGUCAagaUAGAg -3'
miRNA:   3'- cCCGaGGACCUGAg--------CCGGUAGU---GUCU- -5'
27224 3' -57.7 NC_005832.1 + 91292 0.7 0.503439
Target:  5'- cGGGCUuccucugCCUGGccacguccaGCUUGGCCAUgACGGc -3'
miRNA:   3'- -CCCGA-------GGACC---------UGAGCCGGUAgUGUCu -5'
27224 3' -57.7 NC_005832.1 + 54624 0.71 0.456585
Target:  5'- gGGGUUCUcGGACUgGGCCuugAUCACcGAg -3'
miRNA:   3'- -CCCGAGGaCCUGAgCCGG---UAGUGuCU- -5'
27224 3' -57.7 NC_005832.1 + 7459 0.72 0.411299
Target:  5'- uGGCUCCuaUGGACUgGGCg--CACAGGa -3'
miRNA:   3'- cCCGAGG--ACCUGAgCCGguaGUGUCU- -5'
27224 3' -57.7 NC_005832.1 + 75797 0.73 0.388877
Target:  5'- uGGGCgCCaUGGGCUgGGCCAgguaccugcaaaagCACAGGa -3'
miRNA:   3'- -CCCGaGG-ACCUGAgCCGGUa-------------GUGUCU- -5'
27224 3' -57.7 NC_005832.1 + 97204 0.73 0.385499
Target:  5'- aGGCUCCUGGAgcaggcCUCGGCCGUguCc-- -3'
miRNA:   3'- cCCGAGGACCU------GAGCCGGUAguGucu -5'
27224 3' -57.7 NC_005832.1 + 6716 0.73 0.368903
Target:  5'- uGGGC-CCUGGACaugaCGGCCAUCcuguuguCGGGu -3'
miRNA:   3'- -CCCGaGGACCUGa---GCCGGUAGu------GUCU- -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.