miRNA display CGI


Results 1 - 20 of 51 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
26714 3' -59.8 NC_005808.1 + 14421 0.66 0.415437
Target:  5'- uCGCCagGCGCgCCuGCGGCaCCGuguuggGCGAAa -3'
miRNA:   3'- -GCGGa-UGUG-GGuCGCCG-GGC------UGCUUa -5'
26714 3' -59.8 NC_005808.1 + 21210 0.66 0.406169
Target:  5'- uGCUcGCgcagGCCCAGCGcGCCauugCGACGAAc -3'
miRNA:   3'- gCGGaUG----UGGGUCGC-CGG----GCUGCUUa -5'
26714 3' -59.8 NC_005808.1 + 5736 0.66 0.406169
Target:  5'- uCGCacagauCGCCCAGCGcGCCgGgcaGCGAGUg -3'
miRNA:   3'- -GCGgau---GUGGGUCGC-CGGgC---UGCUUA- -5'
26714 3' -59.8 NC_005808.1 + 22942 0.66 0.399759
Target:  5'- uGCCUACucuuucaccaccaACCCGacgcuggccgaugucGCGGCCCGcAUGAc- -3'
miRNA:   3'- gCGGAUG-------------UGGGU---------------CGCCGGGC-UGCUua -5'
26714 3' -59.8 NC_005808.1 + 25079 0.66 0.397032
Target:  5'- uCGCC---ACCCAGCGcagcgcGCCCGGCGc-- -3'
miRNA:   3'- -GCGGaugUGGGUCGC------CGGGCUGCuua -5'
26714 3' -59.8 NC_005808.1 + 30147 0.66 0.397032
Target:  5'- gGCCUGCACCgcgucggacauCAGCGGCaguUGGCGc-- -3'
miRNA:   3'- gCGGAUGUGG-----------GUCGCCGg--GCUGCuua -5'
26714 3' -59.8 NC_005808.1 + 23092 0.66 0.397032
Target:  5'- uCGCCccgACGCCaaCGGCGGCgcccaCGGCGAc- -3'
miRNA:   3'- -GCGGa--UGUGG--GUCGCCGg----GCUGCUua -5'
26714 3' -59.8 NC_005808.1 + 21859 0.66 0.397032
Target:  5'- gCGCCUcuacgGCGCCagCAGCaugucGGCCUGAUGGGg -3'
miRNA:   3'- -GCGGA-----UGUGG--GUCG-----CCGGGCUGCUUa -5'
26714 3' -59.8 NC_005808.1 + 11581 0.66 0.388028
Target:  5'- uGCCU-CGgCCGGCaaGCCCGugGAc- -3'
miRNA:   3'- gCGGAuGUgGGUCGc-CGGGCugCUua -5'
26714 3' -59.8 NC_005808.1 + 26249 0.66 0.388028
Target:  5'- uCGCCgaaggcacggGCACCCGcCGGCCUGGuCGGc- -3'
miRNA:   3'- -GCGGa---------UGUGGGUcGCCGGGCU-GCUua -5'
26714 3' -59.8 NC_005808.1 + 11376 0.66 0.388028
Target:  5'- uCGCCcgGCACCuCGGUGGCgacCUGAUGGGc -3'
miRNA:   3'- -GCGGa-UGUGG-GUCGCCG---GGCUGCUUa -5'
26714 3' -59.8 NC_005808.1 + 16847 0.66 0.385354
Target:  5'- cCGCCcagcagcGCGCCCAGCGuGCUgccgccggugaggaCGACGAc- -3'
miRNA:   3'- -GCGGa------UGUGGGUCGC-CGG--------------GCUGCUua -5'
26714 3' -59.8 NC_005808.1 + 604 0.66 0.37916
Target:  5'- cCGCCUGCgggucGgCCAGCaGCgCCGugGAc- -3'
miRNA:   3'- -GCGGAUG-----UgGGUCGcCG-GGCugCUua -5'
26714 3' -59.8 NC_005808.1 + 17967 0.67 0.361835
Target:  5'- cCGCCgGCACgCCAuGUGGUUCGACGu-- -3'
miRNA:   3'- -GCGGaUGUG-GGU-CGCCGGGCUGCuua -5'
26714 3' -59.8 NC_005808.1 + 11509 0.67 0.361835
Target:  5'- gGCCUGCACCgaggugagCAGCGGCaCCaGGCc--- -3'
miRNA:   3'- gCGGAUGUGG--------GUCGCCG-GG-CUGcuua -5'
26714 3' -59.8 NC_005808.1 + 18440 0.67 0.360984
Target:  5'- aGuCCUGCACCgAaaacgugacggucGCGGCgCCGGCGGc- -3'
miRNA:   3'- gC-GGAUGUGGgU-------------CGCCG-GGCUGCUua -5'
26714 3' -59.8 NC_005808.1 + 11515 0.67 0.353382
Target:  5'- gCGCCUGCGCUgGcGUgaGGCCCuGCGAGc -3'
miRNA:   3'- -GCGGAUGUGGgU-CG--CCGGGcUGCUUa -5'
26714 3' -59.8 NC_005808.1 + 18010 0.67 0.353382
Target:  5'- gGCaaggACACgCCGGaCGGCCCGACc--- -3'
miRNA:   3'- gCGga--UGUG-GGUC-GCCGGGCUGcuua -5'
26714 3' -59.8 NC_005808.1 + 32266 0.67 0.353382
Target:  5'- aCGCCgcagcgACGgCUA-CGGCCUGGCGAAa -3'
miRNA:   3'- -GCGGa-----UGUgGGUcGCCGGGCUGCUUa -5'
26714 3' -59.8 NC_005808.1 + 4118 0.67 0.345069
Target:  5'- aGCCUGCGCUgCAGCGuugcuuCCCGGCGcAUa -3'
miRNA:   3'- gCGGAUGUGG-GUCGCc-----GGGCUGCuUA- -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.