miRNA display CGI


Results 1 - 17 of 17 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
20489 5' -60.3 NC_004688.1 + 58418 0.66 0.659342
Target:  5'- aGCGCGCCuACU--GGGUGauccucaugGGCACCGc -3'
miRNA:   3'- -CGCGCGG-UGAcuCCCGCga-------CUGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 4207 0.66 0.638964
Target:  5'- -aGCGCCGC---GGGCGCcGAgGCCc -3'
miRNA:   3'- cgCGCGGUGacuCCCGCGaCUgUGGu -5'
20489 5' -60.3 NC_004688.1 + 73042 0.66 0.607359
Target:  5'- gGCGCGCCGCaGAuaagcucgaugguGGGCGCc-GCACa- -3'
miRNA:   3'- -CGCGCGGUGaCU-------------CCCGCGacUGUGgu -5'
20489 5' -60.3 NC_004688.1 + 36272 0.66 0.598206
Target:  5'- cGCGCGCgGCgucGGGaacaGC-GACACCGa -3'
miRNA:   3'- -CGCGCGgUGacuCCCg---CGaCUGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 9920 0.67 0.58806
Target:  5'- cCGC-CCAgUGccAGGGCGUUG-CGCCAg -3'
miRNA:   3'- cGCGcGGUgAC--UCCCGCGACuGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 23949 0.67 0.581988
Target:  5'- cUGCGCCAggcucgggaucuuccCU-AGGGCGCUGGCaacguuGCCGa -3'
miRNA:   3'- cGCGCGGU---------------GAcUCCCGCGACUG------UGGU- -5'
20489 5' -60.3 NC_004688.1 + 63762 0.67 0.577947
Target:  5'- gGCGUagauGUCAUUGGGGGCGgaGAggugaucgauCACCGu -3'
miRNA:   3'- -CGCG----CGGUGACUCCCGCgaCU----------GUGGU- -5'
20489 5' -60.3 NC_004688.1 + 83673 0.67 0.55784
Target:  5'- aGCGCGCCcucuuuAUUG-GGGUGCUcaagaagauaGGCGCCc -3'
miRNA:   3'- -CGCGCGG------UGACuCCCGCGA----------CUGUGGu -5'
20489 5' -60.3 NC_004688.1 + 55814 0.67 0.537938
Target:  5'- uGgGCGCCGCgaccgGcggcuAGcGGCGCUcGACACCc -3'
miRNA:   3'- -CgCGCGGUGa----C-----UC-CCGCGA-CUGUGGu -5'
20489 5' -60.3 NC_004688.1 + 73458 0.67 0.537938
Target:  5'- uCGCGCCAC--AGGGCGUcgaucuUGcGCGCCGu -3'
miRNA:   3'- cGCGCGGUGacUCCCGCG------AC-UGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 28744 0.68 0.498923
Target:  5'- gGCGUGCCAUcGAGGccGCGCgcaGGgACCGg -3'
miRNA:   3'- -CGCGCGGUGaCUCC--CGCGa--CUgUGGU- -5'
20489 5' -60.3 NC_004688.1 + 50666 0.69 0.46122
Target:  5'- uGCgGgGCaaaGCUGAGGGCGUccgguUGGCGCUg -3'
miRNA:   3'- -CG-CgCGg--UGACUCCCGCG-----ACUGUGGu -5'
20489 5' -60.3 NC_004688.1 + 36087 0.69 0.440233
Target:  5'- uGUGCGCCACggcgGccaugccgaucucgGGGGUGagggUGACGCCAa -3'
miRNA:   3'- -CGCGCGGUGa---C--------------UCCCGCg---ACUGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 18740 0.69 0.433954
Target:  5'- uGCuGaCGCCAUccagGAGGGCGCcacgGACAUCGc -3'
miRNA:   3'- -CG-C-GCGGUGa---CUCCCGCGa---CUGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 99292 0.71 0.327556
Target:  5'- --cUGCCAgUGGGGGCGCgcaGCGCCAu -3'
miRNA:   3'- cgcGCGGUgACUCCCGCGac-UGUGGU- -5'
20489 5' -60.3 NC_004688.1 + 100611 0.71 0.327556
Target:  5'- gGCGauucuGCUACUGcuGGCGCUGGCGCUc -3'
miRNA:   3'- -CGCg----CGGUGACucCCGCGACUGUGGu -5'
20489 5' -60.3 NC_004688.1 + 55662 1.09 0.000732
Target:  5'- gGCGCGCCACUGAGGGCGCUGACACCAc -3'
miRNA:   3'- -CGCGCGGUGACUCCCGCGACUGUGGU- -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.