miRNA display CGI


Results 1 - 20 of 20 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
12149 3' -58.3 NC_003309.1 + 11501 0.68 0.457103
Target:  5'- gCGAGGcuCGCCgugUCGAuCGCGCCgG-CGg -3'
miRNA:   3'- -GCUCCuuGCGG---AGCU-GCGCGGgUaGC- -5'
12149 3' -58.3 NC_003309.1 + 28333 1.09 0.00059
Target:  5'- gCGAGGAACGCCUCGACGCGCCCAUCGa -3'
miRNA:   3'- -GCUCCUUGCGGAGCUGCGCGGGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 11783 0.77 0.129669
Target:  5'- uCGAGcGAcuuguACGCgUCGGCGCGCCCggCGa -3'
miRNA:   3'- -GCUC-CU-----UGCGgAGCUGCGCGGGuaGC- -5'
12149 3' -58.3 NC_003309.1 + 43378 0.75 0.165039
Target:  5'- aCGAccucGGAGUG-CUCGACGCGCCCGUCu -3'
miRNA:   3'- -GCU----CCUUGCgGAGCUGCGCGGGUAGc -5'
12149 3' -58.3 NC_003309.1 + 10716 0.74 0.193222
Target:  5'- gCGAGcGAA-GCCUCGGCGCGCUCGa-- -3'
miRNA:   3'- -GCUC-CUUgCGGAGCUGCGCGGGUagc -5'
12149 3' -58.3 NC_003309.1 + 41836 0.71 0.31121
Target:  5'- aGAGGAaagagaucACGCCgacCaACgGCGCCCAUCGu -3'
miRNA:   3'- gCUCCU--------UGCGGa--GcUG-CGCGGGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 5581 0.7 0.341329
Target:  5'- gCGAauGAACGCCUUGucuucgcGCGCGCCgAUCGc -3'
miRNA:   3'- -GCUc-CUUGCGGAGC-------UGCGCGGgUAGC- -5'
12149 3' -58.3 NC_003309.1 + 38495 0.69 0.389028
Target:  5'- aGGcGGAACGCCUCGACcguaaagcguGCGCaacgaaagcugcaCGUCGg -3'
miRNA:   3'- gCU-CCUUGCGGAGCUG----------CGCGg------------GUAGC- -5'
12149 3' -58.3 NC_003309.1 + 51525 0.68 0.438063
Target:  5'- uCGAGGAAaGCCaUCGGCuucgGCGCCCugcCGu -3'
miRNA:   3'- -GCUCCUUgCGG-AGCUG----CGCGGGua-GC- -5'
12149 3' -58.3 NC_003309.1 + 44409 0.68 0.446575
Target:  5'- uCGAcGAGCGCCUCGGggaaguugcaaagUGgGCgCCGUCGa -3'
miRNA:   3'- -GCUcCUUGCGGAGCU-------------GCgCG-GGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 52275 0.66 0.589771
Target:  5'- ----cAGCGCaCUUGcCGUGCCCGUCGa -3'
miRNA:   3'- gcuccUUGCG-GAGCuGCGCGGGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 27757 0.68 0.466788
Target:  5'- -uGGGAGuCGCCagaCGACGCGCCgcccggcgCAUCGc -3'
miRNA:   3'- gcUCCUU-GCGGa--GCUGCGCGG--------GUAGC- -5'
12149 3' -58.3 NC_003309.1 + 5163 0.68 0.466788
Target:  5'- uCGAGGcgagcuGCGCgUCGccGCGCGCCgCcgCGa -3'
miRNA:   3'- -GCUCCu-----UGCGgAGC--UGCGCGG-GuaGC- -5'
12149 3' -58.3 NC_003309.1 + 10174 0.68 0.476578
Target:  5'- -------aGCCUCGcgcuCGCGCCCGUCGc -3'
miRNA:   3'- gcuccuugCGGAGCu---GCGCGGGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 41030 0.68 0.477562
Target:  5'- --cGGGACGCCgccgcugcacaagcgCGACaGCGCCCAa-- -3'
miRNA:   3'- gcuCCUUGCGGa--------------GCUG-CGCGGGUagc -5'
12149 3' -58.3 NC_003309.1 + 45763 0.67 0.506535
Target:  5'- uCGGGuucGGCGCCUgaUGuACGCGCCgGUCGu -3'
miRNA:   3'- -GCUCc--UUGCGGA--GC-UGCGCGGgUAGC- -5'
12149 3' -58.3 NC_003309.1 + 22382 0.67 0.526945
Target:  5'- gCGucGAACGCCcgcgCGGCcUGCUCGUCGg -3'
miRNA:   3'- -GCucCUUGCGGa---GCUGcGCGGGUAGC- -5'
12149 3' -58.3 NC_003309.1 + 9480 0.66 0.558108
Target:  5'- uCGAGGcaAACGCCgcaUCGcugUGCGCCCgccGUCGc -3'
miRNA:   3'- -GCUCC--UUGCGG---AGCu--GCGCGGG---UAGC- -5'
12149 3' -58.3 NC_003309.1 + 4186 0.66 0.567563
Target:  5'- aCGAGGcAGCgcggaugucguccGCCagcUCGaACGCGCCgGUCGc -3'
miRNA:   3'- -GCUCC-UUG-------------CGG---AGC-UGCGCGGgUAGC- -5'
12149 3' -58.3 NC_003309.1 + 3850 0.66 0.568616
Target:  5'- gGuuGAGCGCCU-GAUuCGCCCAUUGc -3'
miRNA:   3'- gCucCUUGCGGAgCUGcGCGGGUAGC- -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.