miRNA display CGI


Results 1 - 19 of 19 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
19452 3' -58.7 NC_004685.1 + 17063 0.66 0.600061
Target:  5'- -cGaGCCCUugGGGAAcucuGGCCgCCaGUCc -3'
miRNA:   3'- gaC-CGGGAugUCCUU----UCGG-GGcCAGa -5'
19452 3' -58.7 NC_004685.1 + 51453 0.66 0.600061
Target:  5'- gUGGCCCUgucgcGCAGGGAucuGCUcgaugcggCCGGUg- -3'
miRNA:   3'- gACCGGGA-----UGUCCUUu--CGG--------GGCCAga -5'
19452 3' -58.7 NC_004685.1 + 58688 0.66 0.600061
Target:  5'- -cGGCCCUugcGCAGGAA--CUCCGG-Cg -3'
miRNA:   3'- gaCCGGGA---UGUCCUUucGGGGCCaGa -5'
19452 3' -58.7 NC_004685.1 + 1870 0.66 0.589452
Target:  5'- -cGGCCaggUugAGGAuGGCgUCGGUCa -3'
miRNA:   3'- gaCCGGg--AugUCCUuUCGgGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 18161 0.66 0.578877
Target:  5'- -cGGCCCgaagccCAGGu-GGCCCaCGGUg- -3'
miRNA:   3'- gaCCGGGau----GUCCuuUCGGG-GCCAga -5'
19452 3' -58.7 NC_004685.1 + 15793 0.66 0.568344
Target:  5'- gUGGCCCaggacuCGGGAuAGCCagaccaggcugUCGGUCg -3'
miRNA:   3'- gACCGGGau----GUCCUuUCGG-----------GGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 43351 0.66 0.565193
Target:  5'- aUGGCCCgagucucuucGCGGGuGuagccgcgcgccuuGGCCUCGGUCa -3'
miRNA:   3'- gACCGGGa---------UGUCCuU--------------UCGGGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 63275 0.67 0.537063
Target:  5'- gCUGGCCgaACGGGuuguagcAGGCCCCGcacuucgggcaGUCg -3'
miRNA:   3'- -GACCGGgaUGUCCu------UUCGGGGC-----------CAGa -5'
19452 3' -58.7 NC_004685.1 + 32404 0.67 0.537063
Target:  5'- cCUGGaugccgaUCUGCAGGGccGCUgCGGUCg -3'
miRNA:   3'- -GACCg------GGAUGUCCUuuCGGgGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 23513 0.67 0.516542
Target:  5'- -cGcGCCCgacGCGGGcGA-CCCCGGUCa -3'
miRNA:   3'- gaC-CGGGa--UGUCCuUUcGGGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 3518 0.67 0.5064
Target:  5'- -cGGCCCgugcaauCAGGGcaucGGCCgCUGGUCg -3'
miRNA:   3'- gaCCGGGau-----GUCCUu---UCGG-GGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 44311 0.67 0.5064
Target:  5'- aUGGCCCcagcuggGCGGGcgcaCCCUGGUCg -3'
miRNA:   3'- gACCGGGa------UGUCCuuucGGGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 21644 0.67 0.5064
Target:  5'- -cGGCacCCUGCAGGuggucGAGCCUucgguguuCGGUCUg -3'
miRNA:   3'- gaCCG--GGAUGUCCu----UUCGGG--------GCCAGA- -5'
19452 3' -58.7 NC_004685.1 + 16356 0.67 0.486378
Target:  5'- -cGGUCCauCAGGucgacGGCCUCGGUCUc -3'
miRNA:   3'- gaCCGGGauGUCCuu---UCGGGGCCAGA- -5'
19452 3' -58.7 NC_004685.1 + 20836 0.69 0.401479
Target:  5'- cCUGGCCCUuggaGCGGGucucgAAGGCgaUCCGGUUg -3'
miRNA:   3'- -GACCGGGA----UGUCC-----UUUCG--GGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 51995 0.69 0.398814
Target:  5'- -cGGucaCCCUGaucagugccgacgcCGGGgcGGCCCCGGUCg -3'
miRNA:   3'- gaCC---GGGAU--------------GUCCuuUCGGGGCCAGa -5'
19452 3' -58.7 NC_004685.1 + 66566 0.69 0.392639
Target:  5'- -cGGCCCUGC-GGAAgcgguuGGCCCUcgGGUUg -3'
miRNA:   3'- gaCCGGGAUGuCCUU------UCGGGG--CCAGa -5'
19452 3' -58.7 NC_004685.1 + 13094 0.7 0.358567
Target:  5'- uCUGGCC--ACGGGcAAGGCCCacgcCGGUCa -3'
miRNA:   3'- -GACCGGgaUGUCC-UUUCGGG----GCCAGa -5'
19452 3' -58.7 NC_004685.1 + 25124 1.08 0.000653
Target:  5'- aCUGGCCCUACAGGAAAGCCCCGGUCUg -3'
miRNA:   3'- -GACCGGGAUGUCCUUUCGGGGCCAGA- -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.