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
23369 5' -59.4 NC_005259.1 + 68582 0.66 0.588869
Target:  5'- aCCUCGUauCCG-GCGGCcaccGCagCGUCAa -3'
miRNA:   3'- -GGAGCAgcGGCuCGCCGa---CGa-GCAGU- -5'
23369 5' -59.4 NC_005259.1 + 63381 0.66 0.585754
Target:  5'- uCCUCGUCGCCGAugGCccacgccgaccaauGGUUGCccUUGcUCAu -3'
miRNA:   3'- -GGAGCAGCGGCU--CG--------------CCGACG--AGC-AGU- -5'
23369 5' -59.4 NC_005259.1 + 58924 0.66 0.578498
Target:  5'- gUCUUGUCGUCGGcgggcGCGGUgGCagCGUCGg -3'
miRNA:   3'- -GGAGCAGCGGCU-----CGCCGaCGa-GCAGU- -5'
23369 5' -59.4 NC_005259.1 + 765 0.66 0.557884
Target:  5'- aCCgCGUccaccgCGCCGAgGCGGCUGCccUCGg-- -3'
miRNA:   3'- -GGaGCA------GCGGCU-CGCCGACG--AGCagu -5'
23369 5' -59.4 NC_005259.1 + 40761 0.66 0.557884
Target:  5'- --aCGUCugGUCGAGCauCUGCUCGUCGg -3'
miRNA:   3'- ggaGCAG--CGGCUCGccGACGAGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 49229 0.67 0.537484
Target:  5'- aCUCGUCGUCGGacuCGaccGCUGC-CGUCAc -3'
miRNA:   3'- gGAGCAGCGGCUc--GC---CGACGaGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 8397 0.67 0.537484
Target:  5'- gCCUCGgcgaGCCGGGCcaccucgcuGGCgagcaugcgaUGCUCGUUg -3'
miRNA:   3'- -GGAGCag--CGGCUCG---------CCG----------ACGAGCAGu -5'
23369 5' -59.4 NC_005259.1 + 6283 0.67 0.52738
Target:  5'- aCCUCGUgGUCGAGUGG-UGCgguaccgaUGUCGa -3'
miRNA:   3'- -GGAGCAgCGGCUCGCCgACGa-------GCAGU- -5'
23369 5' -59.4 NC_005259.1 + 61062 0.68 0.487733
Target:  5'- aCCUUGU-GCCGGGCaucGGCauagGCgUCGUCGg -3'
miRNA:   3'- -GGAGCAgCGGCUCG---CCGa---CG-AGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 60274 0.68 0.487733
Target:  5'- aCCagCGcUGCCGGGCGGCca-UCGUCGu -3'
miRNA:   3'- -GGa-GCaGCGGCUCGCCGacgAGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 48629 0.68 0.46844
Target:  5'- aCUgCcUCGCCGAGacgGGCUGCcagaUCGUCGc -3'
miRNA:   3'- gGA-GcAGCGGCUCg--CCGACG----AGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 26823 0.68 0.46844
Target:  5'- aCCggCGguggUGCCgGGGCGGuCUGCUCGggCAg -3'
miRNA:   3'- -GGa-GCa---GCGG-CUCGCC-GACGAGCa-GU- -5'
23369 5' -59.4 NC_005259.1 + 50679 0.68 0.458941
Target:  5'- gCgUCGgUGCCGAcgagGC-GCUGCUCGUCGu -3'
miRNA:   3'- -GgAGCaGCGGCU----CGcCGACGAGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 68510 0.68 0.440258
Target:  5'- aCCUUGccgacuUCuGCCGAGCGaGCUGCccgccacgCGUCGa -3'
miRNA:   3'- -GGAGC------AG-CGGCUCGC-CGACGa-------GCAGU- -5'
23369 5' -59.4 NC_005259.1 + 49727 0.69 0.404235
Target:  5'- aUUCGgcgggCGgCGAGa-GCUGCUCGUCAg -3'
miRNA:   3'- gGAGCa----GCgGCUCgcCGACGAGCAGU- -5'
23369 5' -59.4 NC_005259.1 + 56006 0.69 0.390357
Target:  5'- cCCUCGcccucaccaucacccUCGCCGggcgggacuuccucgGGCGGCUGCggguacuugauggCGUCGa -3'
miRNA:   3'- -GGAGC---------------AGCGGC---------------UCGCCGACGa------------GCAGU- -5'
23369 5' -59.4 NC_005259.1 + 17347 0.7 0.378471
Target:  5'- --aCGUCGCCGucgaggucGGCGGCUcggcGCUgGUCGu -3'
miRNA:   3'- ggaGCAGCGGC--------UCGCCGA----CGAgCAGU- -5'
23369 5' -59.4 NC_005259.1 + 53519 0.7 0.370131
Target:  5'- gCUCGUgGCC-AGCGGCacggGCUCGg-- -3'
miRNA:   3'- gGAGCAgCGGcUCGCCGa---CGAGCagu -5'
23369 5' -59.4 NC_005259.1 + 32688 0.7 0.361918
Target:  5'- -aUCGUCguaGCCGGGCGGUgGUUCGUaCAc -3'
miRNA:   3'- ggAGCAG---CGGCUCGCCGaCGAGCA-GU- -5'
23369 5' -59.4 NC_005259.1 + 52327 0.7 0.345875
Target:  5'- aCCUCGUggcucggacaCGCCGGuguGCcGCUGUUCGUCu -3'
miRNA:   3'- -GGAGCA----------GCGGCU---CGcCGACGAGCAGu -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.