miRNA display CGI


Results 1 - 20 of 55 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
19129 3' -60.3 NC_004684.1 + 683 0.69 0.381872
Target:  5'- gCCUGAUCCucGGCCCcgaggucagccgccGGUGGaCGgCCUGg -3'
miRNA:   3'- -GGACUAGGu-CUGGG--------------CCACC-GUgGGGC- -5'
19129 3' -60.3 NC_004684.1 + 1459 0.72 0.251263
Target:  5'- aCCUGGUCgAGaccgggccggacguGCCCGGUgcGGCgGCCCUGg -3'
miRNA:   3'- -GGACUAGgUC--------------UGGGCCA--CCG-UGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 1913 0.66 0.543464
Target:  5'- aCCUG--CCGGACCCGGccugccgggccUGGUACCg-- -3'
miRNA:   3'- -GGACuaGGUCUGGGCC-----------ACCGUGGggc -5'
19129 3' -60.3 NC_004684.1 + 2223 0.69 0.384397
Target:  5'- -aUGGUCCAGACC--GUGGUGCCCa- -3'
miRNA:   3'- ggACUAGGUCUGGgcCACCGUGGGgc -5'
19129 3' -60.3 NC_004684.1 + 2502 0.68 0.401507
Target:  5'- aCUGAuUUCGGuACCCGGgGGCGCgaCCGg -3'
miRNA:   3'- gGACU-AGGUC-UGGGCCaCCGUGg-GGC- -5'
19129 3' -60.3 NC_004684.1 + 2706 0.66 0.543464
Target:  5'- gCCUGG-CCGGugCCGGgGGCaaguGCgCCa -3'
miRNA:   3'- -GGACUaGGUCugGGCCaCCG----UGgGGc -5'
19129 3' -60.3 NC_004684.1 + 4239 0.66 0.552585
Target:  5'- aCCUGGUUCGGagucugagccgguGCCCGGcggaaUGGCcucuaCCCGg -3'
miRNA:   3'- -GGACUAGGUC-------------UGGGCC-----ACCGug---GGGC- -5'
19129 3' -60.3 NC_004684.1 + 4510 0.66 0.543464
Target:  5'- gCUGGcggCCaccguGGACCCGG-GGUucaacaucACCCCGg -3'
miRNA:   3'- gGACUa--GG-----UCUGGGCCaCCG--------UGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 4519 0.68 0.410242
Target:  5'- gCCggGAUCCuGuuCCGG-GGCgagACCCCGg -3'
miRNA:   3'- -GGa-CUAGGuCugGGCCaCCG---UGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 4899 0.66 0.523378
Target:  5'- gCCUGGUcgCCAccGGCCuCGGcGGCACCaucaCCGg -3'
miRNA:   3'- -GGACUA--GGU--CUGG-GCCaCCGUGG----GGC- -5'
19129 3' -60.3 NC_004684.1 + 5072 1.1 0.000429
Target:  5'- uCCUGAUCCAGACCCGGUGGCACCCCGa -3'
miRNA:   3'- -GGACUAGGUCUGGGCCACCGUGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 5449 0.67 0.465026
Target:  5'- uCC-GGUgcaCCAGGCCCGGcgggugccgUGGCccgcACCCCGc -3'
miRNA:   3'- -GGaCUA---GGUCUGGGCC---------ACCG----UGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 9786 0.66 0.523378
Target:  5'- aCCUcuacgCCgAGGCCCugcgccGGUGGCACCCg- -3'
miRNA:   3'- -GGAcua--GG-UCUGGG------CCACCGUGGGgc -5'
19129 3' -60.3 NC_004684.1 + 10937 0.68 0.410242
Target:  5'- uCgUGcUCCAGGCCUuugaggaucguGGUGGCggccuccuugACCCCGa -3'
miRNA:   3'- -GgACuAGGUCUGGG-----------CCACCG----------UGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 12700 0.7 0.320943
Target:  5'- gUCUGG-CCuu-CCCGGUGGCugguggcuCCCCGg -3'
miRNA:   3'- -GGACUaGGucuGGGCCACCGu-------GGGGC- -5'
19129 3' -60.3 NC_004684.1 + 12989 0.68 0.428062
Target:  5'- aCCgaGcgCCGGGCCgGGUGGauuaugucCCCCGa -3'
miRNA:   3'- -GGa-CuaGGUCUGGgCCACCgu------GGGGC- -5'
19129 3' -60.3 NC_004684.1 + 13069 0.68 0.392892
Target:  5'- gCUGggCaucGACUCGGU-GCGCCCCGg -3'
miRNA:   3'- gGACuaGgu-CUGGGCCAcCGUGGGGC- -5'
19129 3' -60.3 NC_004684.1 + 13176 0.7 0.306356
Target:  5'- aCCUGGUCCAggacagccacGACCUGGUGGCugaaaUCGa -3'
miRNA:   3'- -GGACUAGGU----------CUGGGCCACCGugg--GGC- -5'
19129 3' -60.3 NC_004684.1 + 14203 0.67 0.455627
Target:  5'- uCCUGG-CCAGcgGCgCGGUcGGCcuguCCCCGg -3'
miRNA:   3'- -GGACUaGGUC--UGgGCCA-CCGu---GGGGC- -5'
19129 3' -60.3 NC_004684.1 + 14238 0.73 0.192577
Target:  5'- gCCUucacgCCGGACCCGGUGGa--CCCGg -3'
miRNA:   3'- -GGAcua--GGUCUGGGCCACCgugGGGC- -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.