miRNA display CGI


Results 1 - 20 of 34 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
2222 3' -64.1 NC_001405.1 + 4605 0.66 0.223577
Target:  5'- --gGGCCcacgGGCG-GCGGCCUGG-GCGa -3'
miRNA:   3'- ggaCCGG----UCGCgCGUCGGGCCuCGCg -5'
2222 3' -64.1 NC_001405.1 + 21890 0.66 0.217918
Target:  5'- --cGGCCGGuCGCG-AGaCUgGGGGCGUa -3'
miRNA:   3'- ggaCCGGUC-GCGCgUC-GGgCCUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 809 0.66 0.217918
Target:  5'- ---cGCCGGCGCcCGGUucuCCGGAGcCGCc -3'
miRNA:   3'- ggacCGGUCGCGcGUCG---GGCCUC-GCG- -5'
2222 3' -64.1 NC_001405.1 + 23837 0.66 0.212382
Target:  5'- -aUGGCCGcgggcuggguGUGCGCGGCaCC--AGCGCa -3'
miRNA:   3'- ggACCGGU----------CGCGCGUCG-GGccUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 28518 0.66 0.206968
Target:  5'- --aGGUguGgGCGCAGCaaCCGGuGaCGCa -3'
miRNA:   3'- ggaCCGguCgCGCGUCG--GGCCuC-GCG- -5'
2222 3' -64.1 NC_001405.1 + 26526 0.66 0.206968
Target:  5'- --gGGUCGGCGaacagGCAGUgCCGGcGGCGCc -3'
miRNA:   3'- ggaCCGGUCGCg----CGUCG-GGCC-UCGCG- -5'
2222 3' -64.1 NC_001405.1 + 16329 0.66 0.206968
Target:  5'- --cGGCCGcCGCaGCAGCCgCGGccauuAGUGCu -3'
miRNA:   3'- ggaCCGGUcGCG-CGUCGG-GCC-----UCGCG- -5'
2222 3' -64.1 NC_001405.1 + 7197 0.66 0.206968
Target:  5'- gCCUGGUaGGCGCaGCAuCCCuuuucuacgGGuAGCGCg -3'
miRNA:   3'- -GGACCGgUCGCG-CGUcGGG---------CC-UCGCG- -5'
2222 3' -64.1 NC_001405.1 + 16104 0.66 0.206433
Target:  5'- --cGGCCAuucagaccgugguGCGCGgAGCCCGGcGUuauGCu -3'
miRNA:   3'- ggaCCGGU-------------CGCGCgUCGGGCCuCG---CG- -5'
2222 3' -64.1 NC_001405.1 + 5663 0.66 0.205367
Target:  5'- aCCUGGCUcguGGaaugcgagaccgucUGCGgGGCCUGcGGCGCg -3'
miRNA:   3'- -GGACCGG---UC--------------GCGCgUCGGGCcUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 23242 0.67 0.196496
Target:  5'- ---aGCCAcaaCGCGCAGCCCGuGGGCu- -3'
miRNA:   3'- ggacCGGUc--GCGCGUCGGGC-CUCGcg -5'
2222 3' -64.1 NC_001405.1 + 8697 0.67 0.186491
Target:  5'- uCCU-GCCcGCGCGCGGCgCCGacGUGCc -3'
miRNA:   3'- -GGAcCGGuCGCGCGUCG-GGCcuCGCG- -5'
2222 3' -64.1 NC_001405.1 + 22309 0.67 0.186491
Target:  5'- uCCgcaGCCacAGUGCGCAGauuaGGAGCGCc -3'
miRNA:   3'- -GGac-CGG--UCGCGCGUCggg-CCUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 12211 0.67 0.18023
Target:  5'- uCC-GGCCccagcugccuccagGGCGCGuCGGCuuGGggcccAGCGCa -3'
miRNA:   3'- -GGaCCGG--------------UCGCGC-GUCGggCC-----UCGCG- -5'
2222 3' -64.1 NC_001405.1 + 18543 0.67 0.176936
Target:  5'- gCUGGcCCAGCacuccgGUAGCCauGGGCGCg -3'
miRNA:   3'- gGACC-GGUCGcg----CGUCGGgcCUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 15968 0.67 0.172325
Target:  5'- --cGGCacuacCGCGC-GCCCuGGGGCGCg -3'
miRNA:   3'- ggaCCGguc--GCGCGuCGGG-CCUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 25361 0.68 0.156599
Target:  5'- aCCUGGCaaacggccaugGGCGUGUGGCagcaaugccuggaGGAGCGCa -3'
miRNA:   3'- -GGACCGg----------UCGCGCGUCGgg-----------CCUCGCG- -5'
2222 3' -64.1 NC_001405.1 + 11523 0.68 0.150438
Target:  5'- --cGGCCGccacgugugcGCGCGCGGgacuaauCCCGGuccGCGCg -3'
miRNA:   3'- ggaCCGGU----------CGCGCGUC-------GGGCCu--CGCG- -5'
2222 3' -64.1 NC_001405.1 + 25029 0.68 0.146848
Target:  5'- gCUGGCUugAGaCGCGCgAGCCUgccgacuuggaGGAGCGa -3'
miRNA:   3'- gGACCGG--UC-GCGCG-UCGGG-----------CCUCGCg -5'
2222 3' -64.1 NC_001405.1 + 16043 0.69 0.139149
Target:  5'- --cGGCCGcguuuGUGCGCGcCCCaGGGCGCg -3'
miRNA:   3'- ggaCCGGU-----CGCGCGUcGGGcCUCGCG- -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.