miRNA display CGI


Results 1 - 20 of 99 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
4000 3' -62.9 NC_001650.1 + 117765 0.66 0.696421
Target:  5'- aACUCUGUCUgcgCGGCCCccuucUCCaagcCGGuGGCg -3'
miRNA:   3'- gUGGGACAGGa--GCUGGG-----AGG----GCC-CCG- -5'
4000 3' -62.9 NC_001650.1 + 164638 0.66 0.696421
Target:  5'- cCGCCCcGggCCgcgCGGCacccgggCUCCCGGGGg -3'
miRNA:   3'- -GUGGGaCa-GGa--GCUGg------GAGGGCCCCg -5'
4000 3' -62.9 NC_001650.1 + 151817 0.66 0.695479
Target:  5'- uGCCCUcuaugugGUCCUUG-UCUUCCguguUGGGGCa -3'
miRNA:   3'- gUGGGA-------CAGGAGCuGGGAGG----GCCCCG- -5'
4000 3' -62.9 NC_001650.1 + 53556 0.66 0.695479
Target:  5'- gGCCUUGcCCccggUGACCCUCCUGGccuccagGGUc -3'
miRNA:   3'- gUGGGACaGGa---GCUGGGAGGGCC-------CCG- -5'
4000 3' -62.9 NC_001650.1 + 172383 0.66 0.690762
Target:  5'- aGCCC---CCaUUGGCCCUcuguggguguaaucaCCCGGGGCc -3'
miRNA:   3'- gUGGGacaGG-AGCUGGGA---------------GGGCCCCG- -5'
4000 3' -62.9 NC_001650.1 + 5676 0.66 0.690762
Target:  5'- aGCCC---CCaUUGGCCCUcuguggguguaaucaCCCGGGGCc -3'
miRNA:   3'- gUGGGacaGG-AGCUGGGA---------------GGGCCCCG- -5'
4000 3' -62.9 NC_001650.1 + 95021 0.66 0.681298
Target:  5'- cCGCCCUGgcccgccucacgaucUCgUCGcCCCggagCCCcGGGCa -3'
miRNA:   3'- -GUGGGAC---------------AGgAGCuGGGa---GGGcCCCG- -5'
4000 3' -62.9 NC_001650.1 + 161344 0.66 0.677502
Target:  5'- uGCuCCUGUUCaugcUGGCgUUCCCGGGGg -3'
miRNA:   3'- gUG-GGACAGGa---GCUGgGAGGGCCCCg -5'
4000 3' -62.9 NC_001650.1 + 106995 0.66 0.677502
Target:  5'- aGCCCaGUCCgUgGACCCguccaUCuuGaGGGCg -3'
miRNA:   3'- gUGGGaCAGG-AgCUGGG-----AGggC-CCCG- -5'
4000 3' -62.9 NC_001650.1 + 41584 0.66 0.677502
Target:  5'- gGCCCUauguguuuuggGUCaCU--GCCUUUCCGGGGCc -3'
miRNA:   3'- gUGGGA-----------CAG-GAgcUGGGAGGGCCCCG- -5'
4000 3' -62.9 NC_001650.1 + 28553 0.66 0.677502
Target:  5'- --aCCUGgCCUCGuCCCgggacgggCUgGGGGCg -3'
miRNA:   3'- gugGGACaGGAGCuGGGa-------GGgCCCCG- -5'
4000 3' -62.9 NC_001650.1 + 72981 0.66 0.675602
Target:  5'- gGCCCUGgggcagcaucugCCUCcuCUCUCCCugcuccugccugGGGGCg -3'
miRNA:   3'- gUGGGACa-----------GGAGcuGGGAGGG------------CCCCG- -5'
4000 3' -62.9 NC_001650.1 + 130018 0.66 0.667991
Target:  5'- aACCCUGagCCUgGGCgg-CCCGGGaGCu -3'
miRNA:   3'- gUGGGACa-GGAgCUGggaGGGCCC-CG- -5'
4000 3' -62.9 NC_001650.1 + 82113 0.66 0.667991
Target:  5'- -uCCCUGggaCUCGcACCCggcCUCGGGaGCg -3'
miRNA:   3'- guGGGACag-GAGC-UGGGa--GGGCCC-CG- -5'
4000 3' -62.9 NC_001650.1 + 130978 0.66 0.667991
Target:  5'- gGCCC-GUCUUCGAggcggcgcCCCUgUCGcGGGCc -3'
miRNA:   3'- gUGGGaCAGGAGCU--------GGGAgGGC-CCCG- -5'
4000 3' -62.9 NC_001650.1 + 145755 0.66 0.658454
Target:  5'- aCGCUCggUGUCCUCacaggcgccCCCUCCCGGuugcggagcGGCg -3'
miRNA:   3'- -GUGGG--ACAGGAGcu-------GGGAGGGCC---------CCG- -5'
4000 3' -62.9 NC_001650.1 + 59917 0.66 0.658454
Target:  5'- cCACCUcGUCCgccgCGGCCUcgUCCCugccauuggGGGGUu -3'
miRNA:   3'- -GUGGGaCAGGa---GCUGGG--AGGG---------CCCCG- -5'
4000 3' -62.9 NC_001650.1 + 73062 0.66 0.648899
Target:  5'- gACCCg--CCUCacACCCUCCCugagaGGGCc -3'
miRNA:   3'- gUGGGacaGGAGc-UGGGAGGGc----CCCG- -5'
4000 3' -62.9 NC_001650.1 + 111501 0.66 0.648899
Target:  5'- uGCCCcaccagCUUGGCCCUCUCGuGGGUg -3'
miRNA:   3'- gUGGGacag--GAGCUGGGAGGGC-CCCG- -5'
4000 3' -62.9 NC_001650.1 + 131196 0.66 0.648899
Target:  5'- aUACCCcGaa-UCGGuuaauuucCCUUCCCGGGGCg -3'
miRNA:   3'- -GUGGGaCaggAGCU--------GGGAGGGCCCCG- -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.