miRNA display CGI


Results 1 - 20 of 21 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
12410 5' -55 NC_003324.1 + 35227 0.65 0.771758
Target:  5'- gCGCCgaagGUgaCGAAGGCGcUGAggucaacggCGACGg -3'
miRNA:   3'- -GCGGa---CGgaGUUUCCGC-ACUa--------GCUGC- -5'
12410 5' -55 NC_003324.1 + 30151 0.65 0.771758
Target:  5'- aGCCgcagcgGCCggugucgCGAccggcGGCGUGAUgGGCGg -3'
miRNA:   3'- gCGGa-----CGGa------GUUu----CCGCACUAgCUGC- -5'
12410 5' -55 NC_003324.1 + 47410 0.65 0.771758
Target:  5'- gGCCUGCC----AGGCG-GAgcacagcuUCGACGc -3'
miRNA:   3'- gCGGACGGaguuUCCGCaCU--------AGCUGC- -5'
12410 5' -55 NC_003324.1 + 25327 0.65 0.768735
Target:  5'- uCGCCUugGCUUUAAGGGCGgccagGugcucgaaccgucaGUCGGCGc -3'
miRNA:   3'- -GCGGA--CGGAGUUUCCGCa----C--------------UAGCUGC- -5'
12410 5' -55 NC_003324.1 + 43264 0.66 0.761634
Target:  5'- gCGCCuUGCCUUcgucGAGGCuGgcucgGAUUGGCGc -3'
miRNA:   3'- -GCGG-ACGGAGu---UUCCG-Ca----CUAGCUGC- -5'
12410 5' -55 NC_003324.1 + 28544 0.66 0.751378
Target:  5'- gGCCUGCCgcgcUCAAcauGGCGgcguuagcAUCGACa -3'
miRNA:   3'- gCGGACGG----AGUUu--CCGCac------UAGCUGc -5'
12410 5' -55 NC_003324.1 + 14579 0.66 0.748277
Target:  5'- gGCCUGCCggcgCAAgcggccggcggcgcAGGCGguaGcgUGGCGg -3'
miRNA:   3'- gCGGACGGa---GUU--------------UCCGCa--CuaGCUGC- -5'
12410 5' -55 NC_003324.1 + 14516 0.66 0.730515
Target:  5'- aCGCCggcauggGCC-CAGagccGGGCGUGAUCcccaucgaGGCGu -3'
miRNA:   3'- -GCGGa------CGGaGUU----UCCGCACUAG--------CUGC- -5'
12410 5' -55 NC_003324.1 + 38448 0.66 0.728406
Target:  5'- uCGCUgcUGCaCUCGAAGuagucgaugaaGUGAUCGACGa -3'
miRNA:   3'- -GCGG--ACG-GAGUUUCcg---------CACUAGCUGC- -5'
12410 5' -55 NC_003324.1 + 39361 0.66 0.716738
Target:  5'- uGCCUGCCUCuucaaugagaaccaGAGGGCGgcaaucAUCG-CGc -3'
miRNA:   3'- gCGGACGGAG--------------UUUCCGCac----UAGCuGC- -5'
12410 5' -55 NC_003324.1 + 54276 0.68 0.655003
Target:  5'- gCGCuCUGCCUCGcgcuGCGUGGUCacaGACu -3'
miRNA:   3'- -GCG-GACGGAGUuuc-CGCACUAG---CUGc -5'
12410 5' -55 NC_003324.1 + 11301 0.68 0.644046
Target:  5'- gGUC-GCCUCAuuuGGCGUGAccgaGGCGg -3'
miRNA:   3'- gCGGaCGGAGUuu-CCGCACUag--CUGC- -5'
12410 5' -55 NC_003324.1 + 47911 0.68 0.640757
Target:  5'- gCGCC-GCCUCAuAAGGCGUcaGGUauucgucuuccuucCGGCGg -3'
miRNA:   3'- -GCGGaCGGAGU-UUCCGCA--CUA--------------GCUGC- -5'
12410 5' -55 NC_003324.1 + 7746 0.68 0.618821
Target:  5'- uGCCUauguccgagagcacGCCUCGcaggGAGGCGcGAUCGcaACGg -3'
miRNA:   3'- gCGGA--------------CGGAGU----UUCCGCaCUAGC--UGC- -5'
12410 5' -55 NC_003324.1 + 41645 0.69 0.578416
Target:  5'- uCGCCcGCuCUCGucGGCG-GcgCGACGu -3'
miRNA:   3'- -GCGGaCG-GAGUuuCCGCaCuaGCUGC- -5'
12410 5' -55 NC_003324.1 + 27204 0.69 0.571909
Target:  5'- gCGCCuucucUGCCUCAAcuucccacgcagccGGCGUG-UCGACa -3'
miRNA:   3'- -GCGG-----ACGGAGUUu-------------CCGCACuAGCUGc -5'
12410 5' -55 NC_003324.1 + 20806 0.7 0.524837
Target:  5'- gCGCCUGCgCUCGAAaaucagcucGGCccGUGGUcCGGCGc -3'
miRNA:   3'- -GCGGACG-GAGUUU---------CCG--CACUA-GCUGC- -5'
12410 5' -55 NC_003324.1 + 2365 0.71 0.453335
Target:  5'- aGCCcGCCcgCAGGGGCG-GGUCG-CGg -3'
miRNA:   3'- gCGGaCGGa-GUUUCCGCaCUAGCuGC- -5'
12410 5' -55 NC_003324.1 + 5079 0.73 0.361226
Target:  5'- gGCCUGauagCUUAAGcGGCGcGAUCGACGa -3'
miRNA:   3'- gCGGACg---GAGUUU-CCGCaCUAGCUGC- -5'
12410 5' -55 NC_003324.1 + 50213 0.79 0.150085
Target:  5'- gGCgaGCCUUGAAGGCGUGAccuugaUCGACa -3'
miRNA:   3'- gCGgaCGGAGUUUCCGCACU------AGCUGc -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.