miRNA display CGI


Results 1 - 20 of 26 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
12989 5' -57.6 NC_003387.1 + 32162 0.65 0.581814
Target:  5'- -cCUGCaggcacagauugaCGAGCUGACCGcCGAgCUGc -3'
miRNA:   3'- uaGACGg------------GCUCGACUGGCuGCU-GACu -5'
12989 5' -57.6 NC_003387.1 + 31720 0.66 0.575311
Target:  5'- ---aGCCCGGcGCUGucGCCGACGAgaGc -3'
miRNA:   3'- uagaCGGGCU-CGAC--UGGCUGCUgaCu -5'
12989 5' -57.6 NC_003387.1 + 32609 0.66 0.564511
Target:  5'- -cCUGCUCGGGCUcGCCG-CGggggcGCUGAc -3'
miRNA:   3'- uaGACGGGCUCGAcUGGCuGC-----UGACU- -5'
12989 5' -57.6 NC_003387.1 + 23878 0.66 0.553764
Target:  5'- ---cGaCCCGguguGGCUGGCCGACGuGCUGc -3'
miRNA:   3'- uagaC-GGGC----UCGACUGGCUGC-UGACu -5'
12989 5' -57.6 NC_003387.1 + 22514 0.66 0.553764
Target:  5'- gAUCaUGCCCGccgcgacccuGGCccaGGCCGAgGGCUGGc -3'
miRNA:   3'- -UAG-ACGGGC----------UCGa--CUGGCUgCUGACU- -5'
12989 5' -57.6 NC_003387.1 + 32228 0.66 0.553764
Target:  5'- -gCUGCgcgagcgcgaCGAGCUGGCCGAcCGcCUGGc -3'
miRNA:   3'- uaGACGg---------GCUCGACUGGCU-GCuGACU- -5'
12989 5' -57.6 NC_003387.1 + 49222 0.67 0.521923
Target:  5'- gAUCUGCCgGucgaGGC-GGCCGAgCGGCUGc -3'
miRNA:   3'- -UAGACGGgC----UCGaCUGGCU-GCUGACu -5'
12989 5' -57.6 NC_003387.1 + 33266 0.67 0.515637
Target:  5'- -cCUGCCCGGcCUGccgccgauccccgacACCGACGACg-- -3'
miRNA:   3'- uaGACGGGCUcGAC---------------UGGCUGCUGacu -5'
12989 5' -57.6 NC_003387.1 + 45858 0.67 0.511464
Target:  5'- -cCUGCgCGAGCUG-CUG-CGGCUGc -3'
miRNA:   3'- uaGACGgGCUCGACuGGCuGCUGACu -5'
12989 5' -57.6 NC_003387.1 + 44795 0.67 0.508343
Target:  5'- -gCUgGCCCGcgcgauccucgacgGGCUGACCGAcguCGugUGGa -3'
miRNA:   3'- uaGA-CGGGC--------------UCGACUGGCU---GCugACU- -5'
12989 5' -57.6 NC_003387.1 + 15912 0.67 0.490816
Target:  5'- ----cCCCGAGCUGGCCG-CGAUUa- -3'
miRNA:   3'- uagacGGGCUCGACUGGCuGCUGAcu -5'
12989 5' -57.6 NC_003387.1 + 6148 0.67 0.489794
Target:  5'- -cCUGCCCGAgGCcGAUUGggucggugagucuGCGACUGAc -3'
miRNA:   3'- uaGACGGGCU-CGaCUGGC-------------UGCUGACU- -5'
12989 5' -57.6 NC_003387.1 + 20126 0.67 0.480638
Target:  5'- ---aGCCCGAGCagGAUCGACGucaggaUGAg -3'
miRNA:   3'- uagaCGGGCUCGa-CUGGCUGCug----ACU- -5'
12989 5' -57.6 NC_003387.1 + 543 0.67 0.480638
Target:  5'- -cCUGCCCGcgaucuGGCugcccUGACgCGGCGGCUGu -3'
miRNA:   3'- uaGACGGGC------UCG-----ACUG-GCUGCUGACu -5'
12989 5' -57.6 NC_003387.1 + 34376 0.67 0.470563
Target:  5'- gAUCUGCgCGGuCUGACCGGCGGg--- -3'
miRNA:   3'- -UAGACGgGCUcGACUGGCUGCUgacu -5'
12989 5' -57.6 NC_003387.1 + 32322 0.68 0.431392
Target:  5'- --aUGCCCGAcaugGACCGcuGCGGCUGAu -3'
miRNA:   3'- uagACGGGCUcga-CUGGC--UGCUGACU- -5'
12989 5' -57.6 NC_003387.1 + 22630 0.69 0.4033
Target:  5'- ---gGCCCuGGCcGcccGCCGACGACUGAg -3'
miRNA:   3'- uagaCGGGcUCGaC---UGGCUGCUGACU- -5'
12989 5' -57.6 NC_003387.1 + 23932 0.69 0.385227
Target:  5'- -gCUGCCCG-GCUGGCucgaccggggcaCGGCGACaUGGg -3'
miRNA:   3'- uaGACGGGCuCGACUG------------GCUGCUG-ACU- -5'
12989 5' -57.6 NC_003387.1 + 4470 0.69 0.385227
Target:  5'- ---aGCCCGAGCUGcugGCCG-CGGCcGAc -3'
miRNA:   3'- uagaCGGGCUCGAC---UGGCuGCUGaCU- -5'
12989 5' -57.6 NC_003387.1 + 30413 0.7 0.326323
Target:  5'- -gCUGCCCGAGCUGucgggugaaACCGA-GGCcGAg -3'
miRNA:   3'- uaGACGGGCUCGAC---------UGGCUgCUGaCU- -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.