miRNA display CGI


Results 1 - 18 of 18 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
18230 5' -53.7 NC_004680.1 + 12707 0.66 0.841471
Target:  5'- gCCaGGuCGCCGCGAUCG-GCgcccaagGGUu -3'
miRNA:   3'- gGGaCUuGUGGCGCUAGCaCGaa-----CCG- -5'
18230 5' -53.7 NC_004680.1 + 12793 0.66 0.832659
Target:  5'- cCCUUGGGCGCCG--AUCGcgGCgaccUGGCc -3'
miRNA:   3'- -GGGACUUGUGGCgcUAGCa-CGa---ACCG- -5'
18230 5' -53.7 NC_004680.1 + 42642 0.66 0.823638
Target:  5'- aCCCgUGAcACugUGCGGUCGgaGCauccgacuucuUUGGCg -3'
miRNA:   3'- -GGG-ACU-UGugGCGCUAGCa-CG-----------AACCG- -5'
18230 5' -53.7 NC_004680.1 + 31932 0.67 0.805007
Target:  5'- gCCUGucucaGCCGgGGUCG-GUgUGGCg -3'
miRNA:   3'- gGGACuug--UGGCgCUAGCaCGaACCG- -5'
18230 5' -53.7 NC_004680.1 + 894 0.67 0.805007
Target:  5'- aUCC---ACGCCGCGAacUCG-GuCUUGGCu -3'
miRNA:   3'- -GGGacuUGUGGCGCU--AGCaC-GAACCG- -5'
18230 5' -53.7 NC_004680.1 + 39952 0.67 0.804056
Target:  5'- aCCCUGAaaccgagaucgACGCUGCGGaUGUugauuccGCUcUGGCg -3'
miRNA:   3'- -GGGACU-----------UGUGGCGCUaGCA-------CGA-ACCG- -5'
18230 5' -53.7 NC_004680.1 + 32390 0.67 0.795417
Target:  5'- uCCCUGAGcCGCaGCGGUCGcagcuucucaaUGCUcuugaggagGGCg -3'
miRNA:   3'- -GGGACUU-GUGgCGCUAGC-----------ACGAa--------CCG- -5'
18230 5' -53.7 NC_004680.1 + 49368 0.67 0.765673
Target:  5'- aCUggcggGAGUACCGCGAcagCGccguUGCUUGGCu -3'
miRNA:   3'- gGGa----CUUGUGGCGCUa--GC----ACGAACCG- -5'
18230 5' -53.7 NC_004680.1 + 34731 0.67 0.755472
Target:  5'- uCCCUGGugacACugCGCGAUCa---UUGGUg -3'
miRNA:   3'- -GGGACU----UGugGCGCUAGcacgAACCG- -5'
18230 5' -53.7 NC_004680.1 + 18843 0.68 0.745145
Target:  5'- cCCCUGGGCGuggugUCGUgGAUCGgcuacgGCgUGGCg -3'
miRNA:   3'- -GGGACUUGU-----GGCG-CUAGCa-----CGaACCG- -5'
18230 5' -53.7 NC_004680.1 + 33379 0.68 0.745145
Target:  5'- gCCCUGGACGauGCGGUagCGgaggGUgUGGCg -3'
miRNA:   3'- -GGGACUUGUggCGCUA--GCa---CGaACCG- -5'
18230 5' -53.7 NC_004680.1 + 18008 0.68 0.734704
Target:  5'- aCgUUGAagGCACUGCGGUCGggGCagGGUg -3'
miRNA:   3'- -GgGACU--UGUGGCGCUAGCa-CGaaCCG- -5'
18230 5' -53.7 NC_004680.1 + 59181 0.68 0.702815
Target:  5'- gCgUGGAguUCGCcgguguugGGUUGUGCUUGGCg -3'
miRNA:   3'- gGgACUUguGGCG--------CUAGCACGAACCG- -5'
18230 5' -53.7 NC_004680.1 + 44552 0.69 0.670309
Target:  5'- aCCCgacGAACGCCGCauGAUCGacGCccUGGUg -3'
miRNA:   3'- -GGGa--CUUGUGGCG--CUAGCa-CGa-ACCG- -5'
18230 5' -53.7 NC_004680.1 + 13770 0.7 0.630903
Target:  5'- -aCUG-ACACCGacaaccagguuguguCGAUgGUGCUUGGUg -3'
miRNA:   3'- ggGACuUGUGGC---------------GCUAgCACGAACCG- -5'
18230 5' -53.7 NC_004680.1 + 11108 0.7 0.604609
Target:  5'- gCCCaagcaGAACGCCGCGGccguUCGUcaucugccGCUucUGGCa -3'
miRNA:   3'- -GGGa----CUUGUGGCGCU----AGCA--------CGA--ACCG- -5'
18230 5' -53.7 NC_004680.1 + 29352 0.7 0.582796
Target:  5'- uCCCguuccGAuCGCUGCGAUCGUGgaaGGCa -3'
miRNA:   3'- -GGGa----CUuGUGGCGCUAGCACgaaCCG- -5'
18230 5' -53.7 NC_004680.1 + 50745 1.15 0.000747
Target:  5'- gCCCUGAACACCGCGAUCGUGCUUGGCg -3'
miRNA:   3'- -GGGACUUGUGGCGCUAGCACGAACCG- -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.