miRNA display CGI


Results 1 - 17 of 17 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
7165 3' -56.3 NC_001900.1 + 14 0.67 0.552724
Target:  5'- -aGGAAGGC---GCCCCugGGGGGAAc -3'
miRNA:   3'- ggCUUUCUGgguCGGGGugUUCCCUU- -5'
7165 3' -56.3 NC_001900.1 + 2568 0.69 0.438615
Target:  5'- gCCGcuGAGGGCgUAGCCCgACGGcGGGAAc -3'
miRNA:   3'- -GGC--UUUCUGgGUCGGGgUGUU-CCCUU- -5'
7165 3' -56.3 NC_001900.1 + 4364 0.66 0.574557
Target:  5'- gCGGccagcGGCCUGGCUgCCGCAGGGGAc -3'
miRNA:   3'- gGCUuu---CUGGGUCGG-GGUGUUCCCUu -5'
7165 3' -56.3 NC_001900.1 + 5199 0.66 0.607644
Target:  5'- gCCGAAGuggcaccagucGGCCCAGCCCuCGCGcuGGc- -3'
miRNA:   3'- -GGCUUU-----------CUGGGUCGGG-GUGUucCCuu -5'
7165 3' -56.3 NC_001900.1 + 5466 0.68 0.499385
Target:  5'- gUCGAcgGAGACggUCGGCUCUACAAGGGc- -3'
miRNA:   3'- -GGCU--UUCUG--GGUCGGGGUGUUCCCuu -5'
7165 3' -56.3 NC_001900.1 + 5729 0.68 0.488984
Target:  5'- uCUGgcAGACCCacggucGGCCCgACGugAGGGAGc -3'
miRNA:   3'- -GGCuuUCUGGG------UCGGGgUGU--UCCCUU- -5'
7165 3' -56.3 NC_001900.1 + 8328 0.72 0.270777
Target:  5'- uCCGGGAGGgCaucgagaAGCUCCGCGAGGGGc -3'
miRNA:   3'- -GGCUUUCUgGg------UCGGGGUGUUCCCUu -5'
7165 3' -56.3 NC_001900.1 + 11203 0.7 0.391345
Target:  5'- uCCGcgaAGAGACCaAGCCCCACAucgaGGAGu -3'
miRNA:   3'- -GGC---UUUCUGGgUCGGGGUGUuc--CCUU- -5'
7165 3' -56.3 NC_001900.1 + 11650 0.67 0.563613
Target:  5'- gCGAc--ACCCAGCCCgACGAGGu-- -3'
miRNA:   3'- gGCUuucUGGGUCGGGgUGUUCCcuu -5'
7165 3' -56.3 NC_001900.1 + 12096 0.69 0.400532
Target:  5'- aCCGGcAAGGCaucaAGCCCCACAccuGGGGc -3'
miRNA:   3'- -GGCU-UUCUGgg--UCGGGGUGUu--CCCUu -5'
7165 3' -56.3 NC_001900.1 + 25542 0.74 0.197368
Target:  5'- cCCGGaaGAGGCCugCAGCCUCACcGGGGAu -3'
miRNA:   3'- -GGCU--UUCUGG--GUCGGGGUGuUCCCUu -5'
7165 3' -56.3 NC_001900.1 + 27665 0.68 0.458416
Target:  5'- aCGAu-GuCCUcaAGCCCCGCAAuGGGAAg -3'
miRNA:   3'- gGCUuuCuGGG--UCGGGGUGUU-CCCUU- -5'
7165 3' -56.3 NC_001900.1 + 35002 0.66 0.618729
Target:  5'- gCCG-AGGAuCCCGuGCUCCuuggugaaggaGCGAGGGAAc -3'
miRNA:   3'- -GGCuUUCU-GGGU-CGGGG-----------UGUUCCCUU- -5'
7165 3' -56.3 NC_001900.1 + 35482 0.66 0.618729
Target:  5'- uCCGAuuguAGAcaagcucuCCUguuGGCCCC-CAAGGGAu -3'
miRNA:   3'- -GGCUu---UCU--------GGG---UCGGGGuGUUCCCUu -5'
7165 3' -56.3 NC_001900.1 + 41014 0.71 0.339191
Target:  5'- gCCGucAGGCCCcuGGCCCCACcacuGGGu- -3'
miRNA:   3'- -GGCuuUCUGGG--UCGGGGUGuu--CCCuu -5'
7165 3' -56.3 NC_001900.1 + 44568 1.08 0.000756
Target:  5'- aCCGAAAGACCCAGCCCCACAAGGGAAc -3'
miRNA:   3'- -GGCUUUCUGGGUCGGGGUGUUCCCUU- -5'
7165 3' -56.3 NC_001900.1 + 48836 0.7 0.364624
Target:  5'- -gGAGGGGCCuuCAGCCCCuCAuuaauAGGGAAg -3'
miRNA:   3'- ggCUUUCUGG--GUCGGGGuGU-----UCCCUU- -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.