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
11556 3' -57.2 NC_003085.1 + 39597 0.66 0.596977
Target:  5'- gCUGGagcgCGUcGCGGa-GCGCACCGaGCa -3'
miRNA:   3'- -GACCaa--GUA-CGCCgaUGCGUGGC-CGc -5'
11556 3' -57.2 NC_003085.1 + 23877 0.66 0.596977
Target:  5'- -cGGUgc-UGCGGaCUGCGacUACCGGCc -3'
miRNA:   3'- gaCCAaguACGCC-GAUGC--GUGGCCGc -5'
11556 3' -57.2 NC_003085.1 + 34518 0.66 0.586074
Target:  5'- ----cUCAUGCuGGCcgACGuCGCCGGCu -3'
miRNA:   3'- gaccaAGUACG-CCGa-UGC-GUGGCCGc -5'
11556 3' -57.2 NC_003085.1 + 37328 0.66 0.564391
Target:  5'- -aGGUaCGUGUGGuCUGCGaCGCCugccuugagcgcGGCGg -3'
miRNA:   3'- gaCCAaGUACGCC-GAUGC-GUGG------------CCGC- -5'
11556 3' -57.2 NC_003085.1 + 39255 0.66 0.564391
Target:  5'- uCUGGgccgcagCAUGU-GCUGCGCGCCuccucuacGGCGc -3'
miRNA:   3'- -GACCaa-----GUACGcCGAUGCGUGG--------CCGC- -5'
11556 3' -57.2 NC_003085.1 + 34927 0.66 0.564391
Target:  5'- gUGGUgcaggcgCAcGCGGCggaguUGCugGCCGGCGg -3'
miRNA:   3'- gACCAa------GUaCGCCGau---GCG--UGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 22199 0.67 0.532291
Target:  5'- uUGGgUCcgGCuGCUGCgGCGCCGGg- -3'
miRNA:   3'- gACCaAGuaCGcCGAUG-CGUGGCCgc -5'
11556 3' -57.2 NC_003085.1 + 47622 0.67 0.532291
Target:  5'- --cGUUCA-GCGcGCUGCGCAUCGcucGCGg -3'
miRNA:   3'- gacCAAGUaCGC-CGAUGCGUGGC---CGC- -5'
11556 3' -57.2 NC_003085.1 + 7212 0.67 0.500872
Target:  5'- -cGGaUUCGU-CGGCUGCGgugucaccaGCCGGCGc -3'
miRNA:   3'- gaCC-AAGUAcGCCGAUGCg--------UGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 40764 0.68 0.470298
Target:  5'- uUGGgccUCGUGUGGCUGa-CGuuGGCGg -3'
miRNA:   3'- gACCa--AGUACGCCGAUgcGUggCCGC- -5'
11556 3' -57.2 NC_003085.1 + 23525 0.68 0.470297
Target:  5'- gCUGGgccuccgUCAUGCGucccuGCUGCGCcuGCUGGgCGa -3'
miRNA:   3'- -GACCa------AGUACGC-----CGAUGCG--UGGCC-GC- -5'
11556 3' -57.2 NC_003085.1 + 21504 0.68 0.464297
Target:  5'- aCUGGUuccccuuggagcccgUCGUcGCGGCgcugACGUcccugcgugacuACCGGCGc -3'
miRNA:   3'- -GACCA---------------AGUA-CGCCGa---UGCG------------UGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 30200 0.68 0.464296
Target:  5'- gCUGGggCcgGCGGCggaugGCGuCcguguagaggaggcgGCCGGCGu -3'
miRNA:   3'- -GACCaaGuaCGCCGa----UGC-G---------------UGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 20934 0.68 0.450451
Target:  5'- gCUGGgugg-GCGGCacCGCAgCGGCGa -3'
miRNA:   3'- -GACCaaguaCGCCGauGCGUgGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 34186 0.68 0.43491
Target:  5'- aCUGGUaacugCAUGCGGUggcccugACGCcaccgaacccgccucAUCGGCGg -3'
miRNA:   3'- -GACCAa----GUACGCCGa------UGCG---------------UGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 28680 0.68 0.43491
Target:  5'- aCUGGgcaUCAUccccgcggacaacgcGCGgaGCUGCGCGCUGGCc -3'
miRNA:   3'- -GACCa--AGUA---------------CGC--CGAUGCGUGGCCGc -5'
11556 3' -57.2 NC_003085.1 + 10176 0.69 0.384854
Target:  5'- -aGGUccaUCAacgGCGGUUcCGaCGCCGGCGg -3'
miRNA:   3'- gaCCA---AGUa--CGCCGAuGC-GUGGCCGC- -5'
11556 3' -57.2 NC_003085.1 + 15266 0.69 0.384854
Target:  5'- -cGGc----GCGGCgcugGCGCACCGGCu -3'
miRNA:   3'- gaCCaaguaCGCCGa---UGCGUGGCCGc -5'
11556 3' -57.2 NC_003085.1 + 15109 0.69 0.384854
Target:  5'- cCUGGgc--UGCGGCUugG-GCCGGCc -3'
miRNA:   3'- -GACCaaguACGCCGAugCgUGGCCGc -5'
11556 3' -57.2 NC_003085.1 + 18101 0.7 0.367307
Target:  5'- cCUGGaa---GCGGCUGCGCA-UGGCGg -3'
miRNA:   3'- -GACCaaguaCGCCGAUGCGUgGCCGC- -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.