miRNA display CGI


Results 1 - 20 of 80 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
13992 3' -62.3 NC_003521.1 + 86 0.68 0.594745
Target:  5'- -cGGGCCgGCCGGUcggacguguuucgGGCCgGCGGGUc -3'
miRNA:   3'- gaCCCGG-UGGCCGaa-----------CUGGgCGUCCA- -5'
13992 3' -62.3 NC_003521.1 + 5846 0.67 0.667502
Target:  5'- gCUGGGaCCGCacguaGGCcucgUUGGUCCGCAGGc -3'
miRNA:   3'- -GACCC-GGUGg----CCG----AACUGGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 28355 0.68 0.638791
Target:  5'- gUGGGCCACgGGCcUGGCCUGg---- -3'
miRNA:   3'- gACCCGGUGgCCGaACUGGGCgucca -5'
13992 3' -62.3 NC_003521.1 + 29450 0.69 0.570037
Target:  5'- gUGGGCCaguucaugauccgcgACCGGCUgcugcggGaccccaaccacucgcGCCCGCGGGa -3'
miRNA:   3'- gACCCGG---------------UGGCCGAa------C---------------UGGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 30813 0.69 0.581414
Target:  5'- -aGGGcCCGCCGGCgaaACCCGCGa-- -3'
miRNA:   3'- gaCCC-GGUGGCCGaacUGGGCGUcca -5'
13992 3' -62.3 NC_003521.1 + 32987 0.66 0.74242
Target:  5'- -aGGaGCC-CUGGCggaUGAagcCCCGCAGGc -3'
miRNA:   3'- gaCC-CGGuGGCCGa--ACU---GGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 36695 0.73 0.328628
Target:  5'- -cGGGCU-CCGGCgccUGGCCCgaGCAGGUg -3'
miRNA:   3'- gaCCCGGuGGCCGa--ACUGGG--CGUCCA- -5'
13992 3' -62.3 NC_003521.1 + 37473 0.74 0.288762
Target:  5'- -cGGGCCACCGug--GugCCGCAGGg -3'
miRNA:   3'- gaCCCGGUGGCcgaaCugGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 38632 0.74 0.2825
Target:  5'- -aGaGGCgCGCCGGCUgggUGuCCCGCGGGUc -3'
miRNA:   3'- gaC-CCG-GUGGCCGA---ACuGGGCGUCCA- -5'
13992 3' -62.3 NC_003521.1 + 43836 0.66 0.751483
Target:  5'- ---cGCCGCCGGCcgcgGGCCCGUcacAGGc -3'
miRNA:   3'- gaccCGGUGGCCGaa--CUGGGCG---UCCa -5'
13992 3' -62.3 NC_003521.1 + 48650 0.68 0.629203
Target:  5'- gUGuGGCCgcgACCGGCgcUGACaCCGCAGa- -3'
miRNA:   3'- gAC-CCGG---UGGCCGa-ACUG-GGCGUCca -5'
13992 3' -62.3 NC_003521.1 + 54433 0.66 0.751483
Target:  5'- aCUGcuGCCGCCGcuGCUUGGgCCGaCGGGg -3'
miRNA:   3'- -GACc-CGGUGGC--CGAACUgGGC-GUCCa -5'
13992 3' -62.3 NC_003521.1 + 55247 0.73 0.350036
Target:  5'- -aGcGGCuCGCCGGCga-GCCCGCGGGg -3'
miRNA:   3'- gaC-CCG-GUGGCCGaacUGGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 56253 0.67 0.700697
Target:  5'- -gGGGCUgaggcagGCCGGCaggcagagguugGACUCGCAGGc -3'
miRNA:   3'- gaCCCGG-------UGGCCGaa----------CUGGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 59617 0.66 0.74242
Target:  5'- -gGcGGCC-CCGGCggcgaccgcGGCUCGCAGGc -3'
miRNA:   3'- gaC-CCGGuGGCCGaa-------CUGGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 60686 0.68 0.590931
Target:  5'- gCUGcGGCCGCgCGGgg-GACCCGgGGGc -3'
miRNA:   3'- -GAC-CCGGUG-GCCgaaCUGGGCgUCCa -5'
13992 3' -62.3 NC_003521.1 + 60827 0.66 0.705397
Target:  5'- gCUGGccuucaguaGCCACCaGGaCUU--CCCGCAGGUg -3'
miRNA:   3'- -GACC---------CGGUGG-CC-GAAcuGGGCGUCCA- -5'
13992 3' -62.3 NC_003521.1 + 62831 0.71 0.436675
Target:  5'- aUGGGCaugGCCcGCUcucUGACCCGgCAGGUg -3'
miRNA:   3'- gACCCGg--UGGcCGA---ACUGGGC-GUCCA- -5'
13992 3' -62.3 NC_003521.1 + 75996 0.68 0.638791
Target:  5'- --cGGCCGCCGGUUccuccuccCCCGCGGGc -3'
miRNA:   3'- gacCCGGUGGCCGAacu-----GGGCGUCCa -5'
13992 3' -62.3 NC_003521.1 + 76053 0.68 0.588073
Target:  5'- -cGGGCCGCCagacgcuugaugacGGCgaUGugCgGCAGGUu -3'
miRNA:   3'- gaCCCGGUGG--------------CCGa-ACugGgCGUCCA- -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.