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 + 54014 0.67 0.703715
Target:  5'- gGAGGAGGCUGGGG-CUG-CccGCCCu -3'
miRNA:   3'- -UUUCUCCGAUUCCaGGCaGucCGGGc -5'
27211 3' -56.9 NC_005832.1 + 27859 0.68 0.640977
Target:  5'- aAAGGAGGC---GG-CCGggCAGGCCCu -3'
miRNA:   3'- -UUUCUCCGauuCCaGGCa-GUCCGGGc -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 + 10848 0.68 0.681912
Target:  5'- ----cGGCaAAGGUCagacccgCGUCGGGCCUGg -3'
miRNA:   3'- uuucuCCGaUUCCAG-------GCAGUCCGGGC- -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 + 91555 0.68 0.682955
Target:  5'- ---cAGGCaaAGGGUUCGUCGGGCuuGc -3'
miRNA:   3'- uuucUCCGa-UUCCAGGCAGUCCGggC- -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 + 66204 0.67 0.693362
Target:  5'- -uGGAuGGacgucCUGAaGUCCGUCAGGCUCGa -3'
miRNA:   3'- uuUCU-CC-----GAUUcCAGGCAGUCCGGGC- -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 + 74439 0.69 0.619907
Target:  5'- uAAAGAGGCUAAaGUacCUGaCGGGCCUGg -3'
miRNA:   3'- -UUUCUCCGAUUcCA--GGCaGUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 71166 0.69 0.609383
Target:  5'- cGGAGAGGCcgucAGG-CCGUCcGaGCCCGu -3'
miRNA:   3'- -UUUCUCCGau--UCCaGGCAGuC-CGGGC- -5'
27211 3' -56.9 NC_005832.1 + 13002 0.69 0.609383
Target:  5'- ---cAGGCUGGGGUCC---AGGCCCc -3'
miRNA:   3'- uuucUCCGAUUCCAGGcagUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 65716 0.75 0.278029
Target:  5'- -cAGAGGCUGAGGgcccuccagauaUCCauGUcCAGGCCCGa -3'
miRNA:   3'- uuUCUCCGAUUCC------------AGG--CA-GUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 47972 0.75 0.291762
Target:  5'- ---cGGGCUGAGGgaCGUCGGGCCCc -3'
miRNA:   3'- uuucUCCGAUUCCagGCAGUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 39521 0.7 0.525454
Target:  5'- aGGAGGGGUUGaucuuaaGGGUCCGggAGGaCCCGc -3'
miRNA:   3'- -UUUCUCCGAU-------UCCAGGCagUCC-GGGC- -5'
27211 3' -56.9 NC_005832.1 + 70986 0.7 0.536642
Target:  5'- cAAAGAguacGGC-AGGGUccCCGUUAGGCCCc -3'
miRNA:   3'- -UUUCU----CCGaUUCCA--GGCAGUCCGGGc -5'
27211 3' -56.9 NC_005832.1 + 32735 0.7 0.537663
Target:  5'- gGGAGAGGCUggaggugucugcggGAGGcaggagaaacguccuUCCcuUCAGGCCCGa -3'
miRNA:   3'- -UUUCUCCGA--------------UUCC---------------AGGc-AGUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 31290 0.69 0.567544
Target:  5'- cAAGAcagGGC-AAGGgcggCCGUguGGCCCGu -3'
miRNA:   3'- uUUCU---CCGaUUCCa---GGCAguCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 32642 0.69 0.568582
Target:  5'- gGGAGAGGCUGgaggugucugccgaAGGccgucccaacguccuUCCcuUCAGGCCCGa -3'
miRNA:   3'- -UUUCUCCGAU--------------UCC---------------AGGc-AGUCCGGGC- -5'
27211 3' -56.9 NC_005832.1 + 32828 0.69 0.568582
Target:  5'- gGGAGAGGCUGgaggugucugccgaAGGcaggagaaacguccuUCCcuUCAGGCCCGa -3'
miRNA:   3'- -UUUCUCCGAU--------------UCC---------------AGGc-AGUCCGGGC- -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.