miRNA display CGI


Results 1 - 16 of 16 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
27018 3' -54.8 NC_005832.1 + 17199 0.66 0.903642
Target:  5'- uGGCuuCUGGCaUGGuGUACUcg-CUCCa -3'
miRNA:   3'- -CCGcuGACCG-ACCuCGUGAaaaGGGG- -5'
27018 3' -54.8 NC_005832.1 + 100417 0.66 0.897057
Target:  5'- cGUucCUGGCcGGGGCGCUUUUUCg- -3'
miRNA:   3'- cCGcuGACCGaCCUCGUGAAAAGGgg -5'
27018 3' -54.8 NC_005832.1 + 11764 0.66 0.896385
Target:  5'- aGGuCGACgagGGCacccugcUGGA-CGCU-UUCCCCg -3'
miRNA:   3'- -CC-GCUGa--CCG-------ACCUcGUGAaAAGGGG- -5'
27018 3' -54.8 NC_005832.1 + 95778 0.66 0.896385
Target:  5'- uGGCGGCUacccucgGGCUGGcuGCccucgGCUUgcugCCCUg -3'
miRNA:   3'- -CCGCUGA-------CCGACCu-CG-----UGAAaa--GGGG- -5'
27018 3' -54.8 NC_005832.1 + 42432 0.66 0.868311
Target:  5'- uGGCGGauCUGGCca-AGCACg--UCCCUg -3'
miRNA:   3'- -CCGCU--GACCGaccUCGUGaaaAGGGG- -5'
27018 3' -54.8 NC_005832.1 + 9190 0.67 0.860547
Target:  5'- gGGa-GCUGGC-GGAGCAgga-UCCCCu -3'
miRNA:   3'- -CCgcUGACCGaCCUCGUgaaaAGGGG- -5'
27018 3' -54.8 NC_005832.1 + 22873 0.67 0.860547
Target:  5'- uGCGACgUGGCcauggaacaGGGGCAaauccUCCCCg -3'
miRNA:   3'- cCGCUG-ACCGa--------CCUCGUgaaa-AGGGG- -5'
27018 3' -54.8 NC_005832.1 + 29830 0.67 0.828245
Target:  5'- uGGCGGCguaGGCUGGAGacacagagcuagacUGCUUgaaccuccuguagCCCCu -3'
miRNA:   3'- -CCGCUGa--CCGACCUC--------------GUGAAaa-----------GGGG- -5'
27018 3' -54.8 NC_005832.1 + 55735 0.68 0.809628
Target:  5'- cGgGAgUGGCUGGGGCggcGCUgaccgCCUCu -3'
miRNA:   3'- cCgCUgACCGACCUCG---UGAaaa--GGGG- -5'
27018 3' -54.8 NC_005832.1 + 31159 0.68 0.800494
Target:  5'- uGGCGGCUGGaaGGAGgguggugccUGCUccgagCCCCa -3'
miRNA:   3'- -CCGCUGACCgaCCUC---------GUGAaaa--GGGG- -5'
27018 3' -54.8 NC_005832.1 + 26490 0.68 0.800494
Target:  5'- uGGaGACUGaCgGGGGCACggucaucgUCCCCg -3'
miRNA:   3'- -CCgCUGACcGaCCUCGUGaaa-----AGGGG- -5'
27018 3' -54.8 NC_005832.1 + 83422 0.7 0.681075
Target:  5'- cGGgGACauagaagagGGcCUGGAGCuCUUUggCCCCg -3'
miRNA:   3'- -CCgCUGa--------CC-GACCUCGuGAAAa-GGGG- -5'
27018 3' -54.8 NC_005832.1 + 64340 0.71 0.628506
Target:  5'- aGGCGGCcGGg-GGAGgACUgugCCCCu -3'
miRNA:   3'- -CCGCUGaCCgaCCUCgUGAaaaGGGG- -5'
27018 3' -54.8 NC_005832.1 + 9876 0.72 0.543912
Target:  5'- gGGCGgagggagGCaGGCUGGAGCugUcugcUCCCUa -3'
miRNA:   3'- -CCGC-------UGaCCGACCUCGugAaa--AGGGG- -5'
27018 3' -54.8 NC_005832.1 + 32399 0.75 0.436969
Target:  5'- uGGCGACUGGCUccGGGGCcCUaaaggCCUCc -3'
miRNA:   3'- -CCGCUGACCGA--CCUCGuGAaaa--GGGG- -5'
27018 3' -54.8 NC_005832.1 + 1774 1.14 0.00111
Target:  5'- cGGCGACUGGCUGGAGCACUUUUCCCCu -3'
miRNA:   3'- -CCGCUGACCGACCUCGUGAAAAGGGG- -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.