miRNA display CGI


Results 1 - 20 of 23 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
24945 3' -53.8 NC_005284.1 + 30974 0.66 0.792043
Target:  5'- cCGUCGGCuGgUCgGCGUAGUUCGaacuGGCGc -3'
miRNA:   3'- cGCGGUCG-CgAG-UGCAUCAAGU----UCGC- -5'
24945 3' -53.8 NC_005284.1 + 45423 0.66 0.792043
Target:  5'- cGCgGCCGGCGacgauauUCGCGgcGUcgcgauugUCGGGCGa -3'
miRNA:   3'- -CG-CGGUCGCg------AGUGCauCA--------AGUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 9565 0.66 0.792043
Target:  5'- gGCGCaggCAGCGCUCGCcaaAGcgCAGGgCGa -3'
miRNA:   3'- -CGCG---GUCGCGAGUGca-UCaaGUUC-GC- -5'
24945 3' -53.8 NC_005284.1 + 21136 0.66 0.78608
Target:  5'- cGgGCCAGCGCUucaCGCGUGaugaaugccgcgcgcGgcUCGAGCa -3'
miRNA:   3'- -CgCGGUCGCGA---GUGCAU---------------Ca-AGUUCGc -5'
24945 3' -53.8 NC_005284.1 + 15490 0.66 0.782071
Target:  5'- uCGCCgAGCGCggcgUCGCGUuacccgacUUCGAGCGc -3'
miRNA:   3'- cGCGG-UCGCG----AGUGCAuc------AAGUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 9649 0.66 0.782071
Target:  5'- aGCGCaGGCcgaGCUCGCGggcaugCGAGCGa -3'
miRNA:   3'- -CGCGgUCG---CGAGUGCaucaa-GUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 9905 0.66 0.761659
Target:  5'- cGCGCCGaagcgucgcucGCGCUCGCGcAGc---AGCGg -3'
miRNA:   3'- -CGCGGU-----------CGCGAGUGCaUCaaguUCGC- -5'
24945 3' -53.8 NC_005284.1 + 47880 0.67 0.754382
Target:  5'- cGCGCCgccaAGCGCUCGCccgucgccuccgCGAGCGc -3'
miRNA:   3'- -CGCGG----UCGCGAGUGcaucaa------GUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 25049 0.67 0.751244
Target:  5'- cGCGCCGGUGCUguucggcgcccCgACGUGGUgauugUCAAGg- -3'
miRNA:   3'- -CGCGGUCGCGA-----------G-UGCAUCA-----AGUUCgc -5'
24945 3' -53.8 NC_005284.1 + 1228 0.67 0.739643
Target:  5'- cGCGCCGGCagccGCUCAUGUucaucaucacgacugCGGGCGc -3'
miRNA:   3'- -CGCGGUCG----CGAGUGCAucaa-----------GUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 16778 0.67 0.708458
Target:  5'- uGUGCCGGCGCUacaGCGUcAGgacacgUCGaacGGCa -3'
miRNA:   3'- -CGCGGUCGCGAg--UGCA-UCa-----AGU---UCGc -5'
24945 3' -53.8 NC_005284.1 + 35461 0.68 0.69754
Target:  5'- cGCGCUGGauCUCGCGcGGUgCGAGCa -3'
miRNA:   3'- -CGCGGUCgcGAGUGCaUCAaGUUCGc -5'
24945 3' -53.8 NC_005284.1 + 9518 0.68 0.686558
Target:  5'- gGCGCCcggcgAGCGCUCGuCG-AGgagacgaUCAAGCa -3'
miRNA:   3'- -CGCGG-----UCGCGAGU-GCaUCa------AGUUCGc -5'
24945 3' -53.8 NC_005284.1 + 12129 0.69 0.61993
Target:  5'- aUGCCGucggcGCGCUCG-GUGGUgcggCAAGCGc -3'
miRNA:   3'- cGCGGU-----CGCGAGUgCAUCAa---GUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 47784 0.69 0.597698
Target:  5'- -aGgCGGCGCUCGCGgAGgcgaCGGGCGa -3'
miRNA:   3'- cgCgGUCGCGAGUGCaUCaa--GUUCGC- -5'
24945 3' -53.8 NC_005284.1 + 33778 0.69 0.597698
Target:  5'- uGCGCCGGCGCcgacuuCGUAGU-CGAucGCGc -3'
miRNA:   3'- -CGCGGUCGCGagu---GCAUCAaGUU--CGC- -5'
24945 3' -53.8 NC_005284.1 + 10137 0.7 0.564597
Target:  5'- gGCGCagaCGGCGCUCGCGc-GUaCGGGCa -3'
miRNA:   3'- -CGCG---GUCGCGAGUGCauCAaGUUCGc -5'
24945 3' -53.8 NC_005284.1 + 20397 0.71 0.521276
Target:  5'- aCGCCGuuuuaccguGUGCUCgACGUGGUUCAGGa- -3'
miRNA:   3'- cGCGGU---------CGCGAG-UGCAUCAAGUUCgc -5'
24945 3' -53.8 NC_005284.1 + 21514 0.71 0.500098
Target:  5'- gGCgGCCGGCGCUUGCG----UCGAGCa -3'
miRNA:   3'- -CG-CGGUCGCGAGUGCaucaAGUUCGc -5'
24945 3' -53.8 NC_005284.1 + 51224 0.72 0.438086
Target:  5'- uCGCCaAGCGCUgCACGUGucGUUCAugauucuGGCGa -3'
miRNA:   3'- cGCGG-UCGCGA-GUGCAU--CAAGU-------UCGC- -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.