miRNA display CGI


Results 1 - 20 of 52 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
26986 3' -55.5 NC_005809.1 + 22392 0.66 0.638031
Target:  5'- gGGCGACgacaaGGCg--AAGCCgCAAGGCg -3'
miRNA:   3'- -CCGCUGaag--CCGgagUUCGG-GUUCUG- -5'
26986 3' -55.5 NC_005809.1 + 18473 0.66 0.638031
Target:  5'- cGGCGGCgUCGGCCgauucGUCCAccguGAUg -3'
miRNA:   3'- -CCGCUGaAGCCGGaguu-CGGGUu---CUG- -5'
26986 3' -55.5 NC_005809.1 + 8452 0.66 0.638031
Target:  5'- cGCGAUgUCGGCgUCGagguGGCCUgcGAUg -3'
miRNA:   3'- cCGCUGaAGCCGgAGU----UCGGGuuCUG- -5'
26986 3' -55.5 NC_005809.1 + 27839 0.66 0.626795
Target:  5'- cGGUGGCgcCGGCCgcgCcgcuGCUCAAGAa -3'
miRNA:   3'- -CCGCUGaaGCCGGa--Guu--CGGGUUCUg -5'
26986 3' -55.5 NC_005809.1 + 8134 0.66 0.615564
Target:  5'- cGGUGACUUCccaGCCcuugccguUCAccucgaugaugcGGCCCAGGAa -3'
miRNA:   3'- -CCGCUGAAGc--CGG--------AGU------------UCGGGUUCUg -5'
26986 3' -55.5 NC_005809.1 + 30293 0.66 0.615564
Target:  5'- cGGCacGCUg-GGCCagCAAcccGCCCAGGACa -3'
miRNA:   3'- -CCGc-UGAagCCGGa-GUU---CGGGUUCUG- -5'
26986 3' -55.5 NC_005809.1 + 4922 0.66 0.604348
Target:  5'- cGGCGACgacCaGCUUCuuGCCCucGGGCg -3'
miRNA:   3'- -CCGCUGaa-GcCGGAGuuCGGGu-UCUG- -5'
26986 3' -55.5 NC_005809.1 + 31855 0.66 0.602108
Target:  5'- aGGCGACgacgcauucaagcaaUCGGCCg-AGGCCgugcgcgcugccguCAAGACg -3'
miRNA:   3'- -CCGCUGa--------------AGCCGGagUUCGG--------------GUUCUG- -5'
26986 3' -55.5 NC_005809.1 + 12911 0.67 0.582001
Target:  5'- uGGCGAUgcgcUCGGCCgc--GCCCAuaACg -3'
miRNA:   3'- -CCGCUGa---AGCCGGaguuCGGGUucUG- -5'
26986 3' -55.5 NC_005809.1 + 4047 0.67 0.570887
Target:  5'- cGCGGCgagCGGCaggcCAgcGGCCCAGGGg -3'
miRNA:   3'- cCGCUGaa-GCCGga--GU--UCGGGUUCUg -5'
26986 3' -55.5 NC_005809.1 + 41919 0.67 0.570887
Target:  5'- uGGUGGCUaCaGCCUUggGCaCCGAcucGACg -3'
miRNA:   3'- -CCGCUGAaGcCGGAGuuCG-GGUU---CUG- -5'
26986 3' -55.5 NC_005809.1 + 9756 0.67 0.559826
Target:  5'- gGGCGcGCUUC-GCCUCgAAGUCCA-GAUc -3'
miRNA:   3'- -CCGC-UGAAGcCGGAG-UUCGGGUuCUG- -5'
26986 3' -55.5 NC_005809.1 + 1315 0.67 0.559826
Target:  5'- gGGCGACggccaccaGGCCgaCAAGCgCGAGGa -3'
miRNA:   3'- -CCGCUGaag-----CCGGa-GUUCGgGUUCUg -5'
26986 3' -55.5 NC_005809.1 + 33086 0.67 0.548826
Target:  5'- aGCGACgcggCGGCCUaCAuccucGCCCAuGAa -3'
miRNA:   3'- cCGCUGaa--GCCGGA-GUu----CGGGUuCUg -5'
26986 3' -55.5 NC_005809.1 + 37267 0.67 0.548826
Target:  5'- cGCGGCcuaCGGCCUCGAccuGCC--AGACa -3'
miRNA:   3'- cCGCUGaa-GCCGGAGUU---CGGguUCUG- -5'
26986 3' -55.5 NC_005809.1 + 2487 0.67 0.537893
Target:  5'- aGGCGGuCUUUGaaUUCGAGCgCCGAGAUu -3'
miRNA:   3'- -CCGCU-GAAGCcgGAGUUCG-GGUUCUG- -5'
26986 3' -55.5 NC_005809.1 + 17836 0.67 0.534628
Target:  5'- gGGCGGgUUgaugcccgccaccgUGGCCUCGucGCCCAgguAGGCc -3'
miRNA:   3'- -CCGCUgAA--------------GCCGGAGUu-CGGGU---UCUG- -5'
26986 3' -55.5 NC_005809.1 + 29056 0.67 0.53137
Target:  5'- cGGCGGCUcguaGGCCaucagcgggucauccUCGGGCgCCGAGGu -3'
miRNA:   3'- -CCGCUGAag--CCGG---------------AGUUCG-GGUUCUg -5'
26986 3' -55.5 NC_005809.1 + 10427 0.67 0.527037
Target:  5'- aGGuCGAgUUCGGCCUUGAGggauUCgGGGGCg -3'
miRNA:   3'- -CC-GCUgAAGCCGGAGUUC----GGgUUCUG- -5'
26986 3' -55.5 NC_005809.1 + 20096 0.67 0.524875
Target:  5'- uGGCGACUUCGGaaaaggcGCCCAGcACa -3'
miRNA:   3'- -CCGCUGAAGCCggaguu-CGGGUUcUG- -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.