miRNA display CGI


Results 1 - 20 of 24 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
29805 3' -53.7 NC_006273.1 + 135097 0.66 0.982739
Target:  5'- --uCUCGCgcguggcCGuCUCGCUACGcCGUCg -3'
miRNA:   3'- aucGAGCGaa-----GC-GAGCGAUGCaGUAG- -5'
29805 3' -53.7 NC_006273.1 + 49479 0.66 0.982739
Target:  5'- aAGCU-GCUUCGCUgCGCUugGaUCc-- -3'
miRNA:   3'- aUCGAgCGAAGCGA-GCGAugC-AGuag -5'
29805 3' -53.7 NC_006273.1 + 144452 0.66 0.980703
Target:  5'- cGGCUCGCacuacacggGCUCGCgcgccgGCGUC-UCg -3'
miRNA:   3'- aUCGAGCGaag------CGAGCGa-----UGCAGuAG- -5'
29805 3' -53.7 NC_006273.1 + 225785 0.66 0.978492
Target:  5'- -uGCUCGgugcUUUCGUgauccCGCUcaGCGUCAUCa -3'
miRNA:   3'- auCGAGC----GAAGCGa----GCGA--UGCAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 124455 0.66 0.978492
Target:  5'- cGGCUCGCcgacgcugCGCUCGCgguccagcCG-CAUCa -3'
miRNA:   3'- aUCGAGCGaa------GCGAGCGau------GCaGUAG- -5'
29805 3' -53.7 NC_006273.1 + 34867 0.66 0.978492
Target:  5'- gAGCggaUCGCgaaauaggCGCUCGUcacCGUCGUCa -3'
miRNA:   3'- aUCG---AGCGaa------GCGAGCGau-GCAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 187947 0.67 0.967758
Target:  5'- --aCUCGCcgCGCUCGCggGCGUCc-- -3'
miRNA:   3'- aucGAGCGaaGCGAGCGa-UGCAGuag -5'
29805 3' -53.7 NC_006273.1 + 82115 0.67 0.967758
Target:  5'- -cGUUCuGCUgCGCUCGCUGCucugCGUCc -3'
miRNA:   3'- auCGAG-CGAaGCGAGCGAUGca--GUAG- -5'
29805 3' -53.7 NC_006273.1 + 163330 0.67 0.967758
Target:  5'- gAGCUCGUacacUGCUCGCUcuGCGgcaGUCa -3'
miRNA:   3'- aUCGAGCGaa--GCGAGCGA--UGCag-UAG- -5'
29805 3' -53.7 NC_006273.1 + 130405 0.67 0.964568
Target:  5'- cUGGCUCaGCUgcaUCGCgacCGCgcccGCGUCAUg -3'
miRNA:   3'- -AUCGAG-CGA---AGCGa--GCGa---UGCAGUAg -5'
29805 3' -53.7 NC_006273.1 + 219954 0.68 0.943958
Target:  5'- -cGCUCGCgcUCGCgUCGCUcaucgggcaacgcgGCGUCuUCg -3'
miRNA:   3'- auCGAGCGa-AGCG-AGCGA--------------UGCAGuAG- -5'
29805 3' -53.7 NC_006273.1 + 192642 0.69 0.908463
Target:  5'- gUAGCUCGCcgUCGCUaUGCgGC-UCGUCg -3'
miRNA:   3'- -AUCGAGCGa-AGCGA-GCGaUGcAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 161730 0.7 0.8958
Target:  5'- -cGCUCGCgcuuugCGC-CGCcGCGUCAUg -3'
miRNA:   3'- auCGAGCGaa----GCGaGCGaUGCAGUAg -5'
29805 3' -53.7 NC_006273.1 + 100364 0.7 0.882215
Target:  5'- gGGCggaCGCUUCuGCagaUCGCagACGUCGUCg -3'
miRNA:   3'- aUCGa--GCGAAG-CG---AGCGa-UGCAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 119178 0.7 0.882215
Target:  5'- cAGC-CGCUgaGCUCGCUGCGUUu-- -3'
miRNA:   3'- aUCGaGCGAagCGAGCGAUGCAGuag -5'
29805 3' -53.7 NC_006273.1 + 141679 0.7 0.867739
Target:  5'- gGGCUCGCUcggccUCGCUCGgaACGaCGacUCa -3'
miRNA:   3'- aUCGAGCGA-----AGCGAGCgaUGCaGU--AG- -5'
29805 3' -53.7 NC_006273.1 + 68130 0.71 0.86018
Target:  5'- gAGCg-GCUagaUCGCUCGCUGCGcCAg- -3'
miRNA:   3'- aUCGagCGA---AGCGAGCGAUGCaGUag -5'
29805 3' -53.7 NC_006273.1 + 38507 0.72 0.819423
Target:  5'- -cGCUCGC--CGCUgGCggcgACGUCGUCc -3'
miRNA:   3'- auCGAGCGaaGCGAgCGa---UGCAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 233400 0.72 0.819423
Target:  5'- -cGCUCGC--CGCUgGCggcgACGUCGUCc -3'
miRNA:   3'- auCGAGCGaaGCGAgCGa---UGCAGUAG- -5'
29805 3' -53.7 NC_006273.1 + 152662 0.72 0.792861
Target:  5'- cGGC-CGCcUCGCUCGgCUugGUCuUCa -3'
miRNA:   3'- aUCGaGCGaAGCGAGC-GAugCAGuAG- -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.