miRNA display CGI


Results 1 - 20 of 33 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
18287 3' -59 NC_004681.1 + 62372 0.66 0.638959
Target:  5'- aUCGCaUGAGCGA---GCCCAuUCCCGg -3'
miRNA:   3'- gGGCG-ACUCGCUgguUGGGUcAGGGU- -5'
18287 3' -59 NC_004681.1 + 39784 0.66 0.6285
Target:  5'- gCCCGCcGcGCGACCAucGCC---UCCCAc -3'
miRNA:   3'- -GGGCGaCuCGCUGGU--UGGgucAGGGU- -5'
18287 3' -59 NC_004681.1 + 65898 0.66 0.6285
Target:  5'- cCUCGCgcaugauccUGGGCGACCG-CaaGGUCCCu -3'
miRNA:   3'- -GGGCG---------ACUCGCUGGUuGggUCAGGGu -5'
18287 3' -59 NC_004681.1 + 29572 0.66 0.618043
Target:  5'- uCCCGgUGAgggacaggGUGACCGACUCAccgCCCGu -3'
miRNA:   3'- -GGGCgACU--------CGCUGGUUGGGUca-GGGU- -5'
18287 3' -59 NC_004681.1 + 35945 0.66 0.618043
Target:  5'- --aGCaUGAGCGACCG-CCCA--CCCAu -3'
miRNA:   3'- gggCG-ACUCGCUGGUuGGGUcaGGGU- -5'
18287 3' -59 NC_004681.1 + 34627 0.66 0.616997
Target:  5'- gCCC-UUGGGUGAcacguuCCAgccguuguuguuuGCCCAGUCCCu -3'
miRNA:   3'- -GGGcGACUCGCU------GGU-------------UGGGUCAGGGu -5'
18287 3' -59 NC_004681.1 + 17502 0.66 0.613862
Target:  5'- aCCCGUgGGGCGGCCGuCCaugauguugacgaGGUCCUc -3'
miRNA:   3'- -GGGCGaCUCGCUGGUuGGg------------UCAGGGu -5'
18287 3' -59 NC_004681.1 + 29177 0.66 0.607596
Target:  5'- aCCC-CUGGGCGGCCAucaCAaUCCCu -3'
miRNA:   3'- -GGGcGACUCGCUGGUuggGUcAGGGu -5'
18287 3' -59 NC_004681.1 + 10649 0.66 0.607596
Target:  5'- aCCGCUGccuGGCG-CC--CCCGGUgCCCGc -3'
miRNA:   3'- gGGCGAC---UCGCuGGuuGGGUCA-GGGU- -5'
18287 3' -59 NC_004681.1 + 7860 0.66 0.607596
Target:  5'- gCCCGCUGA-CGAagAGCCCGcgCCCGu -3'
miRNA:   3'- -GGGCGACUcGCUggUUGGGUcaGGGU- -5'
18287 3' -59 NC_004681.1 + 74136 0.66 0.597169
Target:  5'- -aCGCgcacgGAGCGcUCAGCUCAG-CCCAg -3'
miRNA:   3'- ggGCGa----CUCGCuGGUUGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 50453 0.66 0.597169
Target:  5'- aCCaCGUcgUGGGCGAcgcccaccCCGACCguGUCCUg -3'
miRNA:   3'- -GG-GCG--ACUCGCU--------GGUUGGguCAGGGu -5'
18287 3' -59 NC_004681.1 + 31119 0.66 0.596128
Target:  5'- gCCGCUGuccGCGuugcgcuugcACCAgucguaguugugcGCCCAGUCCa- -3'
miRNA:   3'- gGGCGACu--CGC----------UGGU-------------UGGGUCAGGgu -5'
18287 3' -59 NC_004681.1 + 64949 0.66 0.586769
Target:  5'- aCCaGCUGGgugaggucGCGGCgCAGguaCCAGUCCCAc -3'
miRNA:   3'- gGG-CGACU--------CGCUG-GUUg--GGUCAGGGU- -5'
18287 3' -59 NC_004681.1 + 12882 0.67 0.555803
Target:  5'- gCCGCUGcgGGUGACCAcACCCAca-CCGg -3'
miRNA:   3'- gGGCGAC--UCGCUGGU-UGGGUcagGGU- -5'
18287 3' -59 NC_004681.1 + 48803 0.67 0.535422
Target:  5'- aCCGC-GGGCGACUcgaagccgAACUCGG-CCCAu -3'
miRNA:   3'- gGGCGaCUCGCUGG--------UUGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 74028 0.67 0.529358
Target:  5'- gCCCGCUGGGCugagcugagcgcuccGugCGcguACCCAGUaaaUCCGg -3'
miRNA:   3'- -GGGCGACUCG---------------CugGU---UGGGUCA---GGGU- -5'
18287 3' -59 NC_004681.1 + 28602 0.67 0.525329
Target:  5'- aCCGCggGGGUGcCCGgggugagugugaGCCCAGcCCCGg -3'
miRNA:   3'- gGGCGa-CUCGCuGGU------------UGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 10240 0.68 0.519308
Target:  5'- uUCGCUGcgGGUGACCuacacccacggcuacAACCCGGUgCCGg -3'
miRNA:   3'- gGGCGAC--UCGCUGG---------------UUGGGUCAgGGU- -5'
18287 3' -59 NC_004681.1 + 22830 0.68 0.482826
Target:  5'- aCCCGaguGGCGGCCGugCCGGUguucugggucugugCCCAc -3'
miRNA:   3'- -GGGCgacUCGCUGGUugGGUCA--------------GGGU- -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.