miRNA display CGI


Results 1 - 20 of 59 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
20640 3' -47.4 NC_004688.1 + 622 0.7 0.985059
Target:  5'- -aCUAcgGGCAaguauGCGCUCCCAGAAGACa- -3'
miRNA:   3'- gaGAU--UUGU-----UGUGGGGGUCUUUUGgg -5'
20640 3' -47.4 NC_004688.1 + 11849 0.69 0.989958
Target:  5'- -gCUGGACAuguucaccCGCaCCCCGGAAAugCUg -3'
miRNA:   3'- gaGAUUUGUu-------GUG-GGGGUCUUUugGG- -5'
20640 3' -47.4 NC_004688.1 + 13954 0.72 0.95113
Target:  5'- cCUCgUAAACAuccccacaacGCACCguagaCCCgAGAAAACCCa -3'
miRNA:   3'- -GAG-AUUUGU----------UGUGG-----GGG-UCUUUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 15345 0.67 0.998005
Target:  5'- -cCUAGGCGGCcagggGCCgCCGGAGuggcgcAACCCc -3'
miRNA:   3'- gaGAUUUGUUG-----UGGgGGUCUU------UUGGG- -5'
20640 3' -47.4 NC_004688.1 + 17515 0.67 0.997601
Target:  5'- aUCcGAGaGACGCUCCCAGGugaaGAACUCg -3'
miRNA:   3'- gAGaUUUgUUGUGGGGGUCU----UUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 19423 0.66 0.999417
Target:  5'- aCUCggggcggugGAACuuCACgCCCAGGccGAGCUCa -3'
miRNA:   3'- -GAGa--------UUUGuuGUGgGGGUCU--UUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 20043 0.72 0.955437
Target:  5'- cCUUUuuGCGggcgcgcuGCugCCaCCGGGAGACCCg -3'
miRNA:   3'- -GAGAuuUGU--------UGugGG-GGUCUUUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 26811 0.67 0.99835
Target:  5'- gCUCUGAuccgGCGAUugGCCUCaAGAuAACCCu -3'
miRNA:   3'- -GAGAUU----UGUUG--UGGGGgUCUuUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 27215 0.66 0.999273
Target:  5'- gCUCaAGAagauaGGCGCCCCCcacaAGGAcGCCUg -3'
miRNA:   3'- -GAGaUUUg----UUGUGGGGG----UCUUuUGGG- -5'
20640 3' -47.4 NC_004688.1 + 28156 0.68 0.994427
Target:  5'- ---cGGGCAGCGCacgcgccccaCCCGGAAguAGCCCg -3'
miRNA:   3'- gagaUUUGUUGUGg---------GGGUCUU--UUGGG- -5'
20640 3' -47.4 NC_004688.1 + 31004 0.77 0.779173
Target:  5'- -aCUGAGCGACACCCaCGGGc-GCCCg -3'
miRNA:   3'- gaGAUUUGUUGUGGGgGUCUuuUGGG- -5'
20640 3' -47.4 NC_004688.1 + 31252 0.72 0.941703
Target:  5'- cCUCUcagccggguaccAGACGGgGCCCCCgugaGGGGAAUCCa -3'
miRNA:   3'- -GAGA------------UUUGUUgUGGGGG----UCUUUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 36005 0.68 0.994427
Target:  5'- uCUCUuuACGGCuuCgCCCCAGGuguCCCc -3'
miRNA:   3'- -GAGAuuUGUUGu-G-GGGGUCUuuuGGG- -5'
20640 3' -47.4 NC_004688.1 + 39057 0.67 0.998005
Target:  5'- ---gGAACAGCACCCUCAcc-AACCa -3'
miRNA:   3'- gagaUUUGUUGUGGGGGUcuuUUGGg -5'
20640 3' -47.4 NC_004688.1 + 41940 0.68 0.992452
Target:  5'- cCUCcgAAGCGuccGCACCUUCAGAcgccaaggcguGGGCCCu -3'
miRNA:   3'- -GAGa-UUUGU---UGUGGGGGUCU-----------UUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 42465 0.66 0.998892
Target:  5'- -aCUGAGCGuccaGCACUCgCCAGGcgAGGCCa -3'
miRNA:   3'- gaGAUUUGU----UGUGGG-GGUCU--UUUGGg -5'
20640 3' -47.4 NC_004688.1 + 43955 0.66 0.9991
Target:  5'- uCUCcuUGAugGACuuaaguUCCCCGGAAAugUCg -3'
miRNA:   3'- -GAG--AUUugUUGu-----GGGGGUCUUUugGG- -5'
20640 3' -47.4 NC_004688.1 + 44840 0.68 0.994427
Target:  5'- -aCUGGACAACuggaauuguuGCCCCgAGAGuuACCUu -3'
miRNA:   3'- gaGAUUUGUUG----------UGGGGgUCUUu-UGGG- -5'
20640 3' -47.4 NC_004688.1 + 46851 0.7 0.985059
Target:  5'- ---cGAGCGAgcuggccuCAUaCCCCGGAAGGCCCg -3'
miRNA:   3'- gagaUUUGUU--------GUG-GGGGUCUUUUGGG- -5'
20640 3' -47.4 NC_004688.1 + 46921 0.67 0.997131
Target:  5'- ---cGAACAcgaucGCGCCCCCAcacuggccGggGACCg -3'
miRNA:   3'- gagaUUUGU-----UGUGGGGGU--------CuuUUGGg -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.