miRNA display CGI


Results 1 - 20 of 25 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
18304 3' -55.2 NC_004681.1 + 3191 0.66 0.82186
Target:  5'- uGGGcCGAacacGCCuCGUGUCGAGUUCuGCa- -3'
miRNA:   3'- -CCC-GCU----UGG-GCACGGUUCAGGuUGac -5'
18304 3' -55.2 NC_004681.1 + 2927 0.66 0.820961
Target:  5'- uGGGCGAcggcaccGCCaCGcgcGCCGAGUucaCCAGCg- -3'
miRNA:   3'- -CCCGCU-------UGG-GCa--CGGUUCA---GGUUGac -5'
18304 3' -55.2 NC_004681.1 + 18280 0.66 0.80353
Target:  5'- cGGGCGcGGCaCG-GCCGcAGUCCucGACUGg -3'
miRNA:   3'- -CCCGC-UUGgGCaCGGU-UCAGG--UUGAC- -5'
18304 3' -55.2 NC_004681.1 + 612 0.66 0.80353
Target:  5'- -cGCG-GCCgCGgaagaugGCCGGGUCCAGCUu -3'
miRNA:   3'- ccCGCuUGG-GCa------CGGUUCAGGUUGAc -5'
18304 3' -55.2 NC_004681.1 + 66953 0.66 0.80353
Target:  5'- aGGGCu-GCUC--GCCAGuGUCCGGCUGa -3'
miRNA:   3'- -CCCGcuUGGGcaCGGUU-CAGGUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 32134 0.66 0.784516
Target:  5'- cGGCG-GCCCacGCCAAcGaCCAGCUGg -3'
miRNA:   3'- cCCGCuUGGGcaCGGUU-CaGGUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 13593 0.66 0.784516
Target:  5'- cGGGCG-GCCac-GCCAAugacGUCCAGCUc -3'
miRNA:   3'- -CCCGCuUGGgcaCGGUU----CAGGUUGAc -5'
18304 3' -55.2 NC_004681.1 + 22311 0.67 0.764897
Target:  5'- aGGGUGAGCCCGguaaGCCcccGGUgaUCGACa- -3'
miRNA:   3'- -CCCGCUUGGGCa---CGGu--UCA--GGUUGac -5'
18304 3' -55.2 NC_004681.1 + 40043 0.67 0.764897
Target:  5'- aGGGCGAAgccgauCCCGcagGCCGAcgCCAGCa- -3'
miRNA:   3'- -CCCGCUU------GGGCa--CGGUUcaGGUUGac -5'
18304 3' -55.2 NC_004681.1 + 12183 0.67 0.762905
Target:  5'- cGGGCGGACCuCGgccacguacucgGCCucGUCCAuGCg- -3'
miRNA:   3'- -CCCGCUUGG-GCa-----------CGGuuCAGGU-UGac -5'
18304 3' -55.2 NC_004681.1 + 450 0.67 0.744758
Target:  5'- uGGGCGuccAACCUG-GCCGAGUUCGu--- -3'
miRNA:   3'- -CCCGC---UUGGGCaCGGUUCAGGUugac -5'
18304 3' -55.2 NC_004681.1 + 25201 0.67 0.743739
Target:  5'- gGGGUGggUCCGcggccaaccgaggUGCCGAGga-GGCUGa -3'
miRNA:   3'- -CCCGCuuGGGC-------------ACGGUUCaggUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 50462 0.67 0.73452
Target:  5'- uGGGCGAcGCCCaccccgaccGUGUCcuGcgCCAACUGg -3'
miRNA:   3'- -CCCGCU-UGGG---------CACGGuuCa-GGUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 12296 0.67 0.73452
Target:  5'- cGGCGcgcggggaAGCCCGacGCCGGGUCCGGgUa -3'
miRNA:   3'- cCCGC--------UUGGGCa-CGGUUCAGGUUgAc -5'
18304 3' -55.2 NC_004681.1 + 60230 0.68 0.70326
Target:  5'- uGGCGGACuuGUGCgAaacGGUgUGACUGa -3'
miRNA:   3'- cCCGCUUGggCACGgU---UCAgGUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 48324 0.68 0.692693
Target:  5'- uGGCGAGCCuCG-GCgAGGgCCAGCUu -3'
miRNA:   3'- cCCGCUUGG-GCaCGgUUCaGGUUGAc -5'
18304 3' -55.2 NC_004681.1 + 14222 0.68 0.692693
Target:  5'- aGGGCGGACgUCGcUGCCAuGUCgAACc- -3'
miRNA:   3'- -CCCGCUUG-GGC-ACGGUuCAGgUUGac -5'
18304 3' -55.2 NC_004681.1 + 63852 0.68 0.671403
Target:  5'- cGGGCGGGCCU-UGCCucgcgccguGGUCgAAUUGg -3'
miRNA:   3'- -CCCGCUUGGGcACGGu--------UCAGgUUGAC- -5'
18304 3' -55.2 NC_004681.1 + 30729 0.68 0.671403
Target:  5'- gGGGCGAGCUCGacggcaUGCUcaucGAGUCCGcggGCUc -3'
miRNA:   3'- -CCCGCUUGGGC------ACGG----UUCAGGU---UGAc -5'
18304 3' -55.2 NC_004681.1 + 48680 0.68 0.667125
Target:  5'- uGGCGGGCCagcucccauggGCCGAGUUCGGCUu -3'
miRNA:   3'- cCCGCUUGGgca--------CGGUUCAGGUUGAc -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.