miRNA display CGI


Results 1 - 20 of 38 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
27211 3' -56.9 NC_005832.1 + 67224 0.66 0.792809
Target:  5'- -uAGAG---AAGGUCC-UCAGGCCCu -3'
miRNA:   3'- uuUCUCcgaUUCCAGGcAGUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 67777 0.66 0.792809
Target:  5'- gAGAGAGGCUca----CGUCAGGgCCGa -3'
miRNA:   3'- -UUUCUCCGAuuccagGCAGUCCgGGC- -5'
27211 3' -56.9 NC_005832.1 + 98290 0.66 0.792809
Target:  5'- gGGAGAGGCUcaaggagugcgcAAGGgaggCCGaaaGGGCCuCGg -3'
miRNA:   3'- -UUUCUCCGA------------UUCCa---GGCag-UCCGG-GC- -5'
27211 3' -56.9 NC_005832.1 + 19943 0.66 0.783392
Target:  5'- -uGGGGGUgGAGGUCC-UCGGggcaucuccaGCCCGg -3'
miRNA:   3'- uuUCUCCGaUUCCAGGcAGUC----------CGGGC- -5'
27211 3' -56.9 NC_005832.1 + 103466 0.66 0.783392
Target:  5'- cGAGAuGGCgGAGGUCC-UCGgGGUCCa -3'
miRNA:   3'- uUUCU-CCGaUUCCAGGcAGU-CCGGGc -5'
27211 3' -56.9 NC_005832.1 + 43787 0.66 0.773832
Target:  5'- uAAAGAGGCUGGGuUUCGaCGagauGGCCCa -3'
miRNA:   3'- -UUUCUCCGAUUCcAGGCaGU----CCGGGc -5'
27211 3' -56.9 NC_005832.1 + 21078 0.66 0.764138
Target:  5'- gGAGGAGGCUGgugauugccgGGGcCCGUaGGGacgcCCCGg -3'
miRNA:   3'- -UUUCUCCGAU----------UCCaGGCAgUCC----GGGC- -5'
27211 3' -56.9 NC_005832.1 + 82853 0.66 0.754319
Target:  5'- --cGAGGUUgcguuucucaucGAGGaCCGUCggAGGCCCu -3'
miRNA:   3'- uuuCUCCGA------------UUCCaGGCAG--UCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 90557 0.66 0.754319
Target:  5'- gGGAGGGGUgccUGAGGgaCGggAGGCCCGa -3'
miRNA:   3'- -UUUCUCCG---AUUCCagGCagUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 19715 0.66 0.742387
Target:  5'- ----cGGCcaagaccgucagGGGGaCCGUCAGGCCCa -3'
miRNA:   3'- uuucuCCGa-----------UUCCaGGCAGUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 54014 0.67 0.703715
Target:  5'- gGAGGAGGCUGGGG-CUG-CccGCCCu -3'
miRNA:   3'- -UUUCUCCGAUUCCaGGCaGucCGGGc -5'
27211 3' -56.9 NC_005832.1 + 44332 0.67 0.703715
Target:  5'- --uGAGGCUGAGGaCCccCAGGCaCCc -3'
miRNA:   3'- uuuCUCCGAUUCCaGGcaGUCCG-GGc -5'
27211 3' -56.9 NC_005832.1 + 66204 0.67 0.693362
Target:  5'- -uGGAuGGacgucCUGAaGUCCGUCAGGCUCGa -3'
miRNA:   3'- uuUCU-CC-----GAUUcCAGGCAGUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 28031 0.67 0.693362
Target:  5'- -uGGAGGgUAguggGGGUaCCGuggcUCAGGCCCu -3'
miRNA:   3'- uuUCUCCgAU----UCCA-GGC----AGUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 45792 0.67 0.693362
Target:  5'- -cAGGGGCcAGGGccugUCCGagAGGCUCGa -3'
miRNA:   3'- uuUCUCCGaUUCC----AGGCagUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 91555 0.68 0.682955
Target:  5'- ---cAGGCaaAGGGUUCGUCGGGCuuGc -3'
miRNA:   3'- uuucUCCGa-UUCCAGGCAGUCCGggC- -5'
27211 3' -56.9 NC_005832.1 + 43140 0.68 0.682955
Target:  5'- cAGGGAGGCcgugcuGGccaCCGUCAGGCUgGg -3'
miRNA:   3'- -UUUCUCCGauu---CCa--GGCAGUCCGGgC- -5'
27211 3' -56.9 NC_005832.1 + 10848 0.68 0.681912
Target:  5'- ----cGGCaAAGGUCagacccgCGUCGGGCCUGg -3'
miRNA:   3'- uuucuCCGaUUCCAG-------GCAGUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 40861 0.68 0.667264
Target:  5'- -cGGGGGCaucuuuacggccAGGUCCGUCuuuaccaGGGCCCu -3'
miRNA:   3'- uuUCUCCGau----------UCCAGGCAG-------UCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 27859 0.68 0.640977
Target:  5'- aAAGGAGGC---GG-CCGggCAGGCCCu -3'
miRNA:   3'- -UUUCUCCGauuCCaGGCa-GUCCGGGc -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.