miRNA display CGI


Results 1 - 20 of 26 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
1649 3' -56 NC_001347.2 + 149675 0.66 0.962637
Target:  5'- aUCGGcacCUGcGGGCAGGUGGGCccgACGUGGa -3'
miRNA:   3'- -GGCUc--GAU-CUCGUCCACCUG---UGCGUC- -5'
1649 3' -56 NC_001347.2 + 82700 0.66 0.962637
Target:  5'- cCCGAaC-AGGGUguacGGGUGGugGCGguGg -3'
miRNA:   3'- -GGCUcGaUCUCG----UCCACCugUGCguC- -5'
1649 3' -56 NC_001347.2 + 77757 0.66 0.958857
Target:  5'- gCCGAGCgaggcggccGAGCGGGcgcaauuUGuACGCGCGGc -3'
miRNA:   3'- -GGCUCGau-------CUCGUCC-------ACcUGUGCGUC- -5'
1649 3' -56 NC_001347.2 + 99573 0.66 0.947659
Target:  5'- cCCGcGCUcgucgucgGGAGCGcGGUGGAagacaGCGCGu -3'
miRNA:   3'- -GGCuCGA--------UCUCGU-CCACCUg----UGCGUc -5'
1649 3' -56 NC_001347.2 + 59444 0.66 0.947659
Target:  5'- aUGAGgUgaAGAGUgAGGUGGAUGCGguGc -3'
miRNA:   3'- gGCUCgA--UCUCG-UCCACCUGUGCguC- -5'
1649 3' -56 NC_001347.2 + 196390 0.66 0.945114
Target:  5'- gCCGAGCUGaGGCuGGagcgcaaccgacaccUGGGCGCGUu- -3'
miRNA:   3'- -GGCUCGAUcUCGuCC---------------ACCUGUGCGuc -5'
1649 3' -56 NC_001347.2 + 75255 0.66 0.943372
Target:  5'- uCCGAGUcgucauGguGGuUGGACAgGCAGg -3'
miRNA:   3'- -GGCUCGaucu--CguCC-ACCUGUgCGUC- -5'
1649 3' -56 NC_001347.2 + 138955 0.67 0.938863
Target:  5'- aCCGcGCUAGcGCcGGUGGgGCcCGCGGc -3'
miRNA:   3'- -GGCuCGAUCuCGuCCACC-UGuGCGUC- -5'
1649 3' -56 NC_001347.2 + 155590 0.67 0.934129
Target:  5'- gUGGGCUcgagGGGGgAGGUGGugACGacgaGGa -3'
miRNA:   3'- gGCUCGA----UCUCgUCCACCugUGCg---UC- -5'
1649 3' -56 NC_001347.2 + 41215 0.67 0.923984
Target:  5'- gCCGAcuGCUGGuGCAuGUGGGgACGCu- -3'
miRNA:   3'- -GGCU--CGAUCuCGUcCACCUgUGCGuc -5'
1649 3' -56 NC_001347.2 + 84983 0.67 0.918573
Target:  5'- aUGAGCaGGAGCGGGaugUGGu--CGCAGu -3'
miRNA:   3'- gGCUCGaUCUCGUCC---ACCuguGCGUC- -5'
1649 3' -56 NC_001347.2 + 189494 0.67 0.918573
Target:  5'- gCCGguucagggaaGGCUAGAGaaaCAGGUgucGGGCACGCc- -3'
miRNA:   3'- -GGC----------UCGAUCUC---GUCCA---CCUGUGCGuc -5'
1649 3' -56 NC_001347.2 + 77934 0.68 0.907076
Target:  5'- gUGcGCUcGGAGCGGcUGGAgGCGCAGc -3'
miRNA:   3'- gGCuCGA-UCUCGUCcACCUgUGCGUC- -5'
1649 3' -56 NC_001347.2 + 158008 0.69 0.874495
Target:  5'- gCGgcAGCUGcGGC-GGUaGGACACGCGGg -3'
miRNA:   3'- gGC--UCGAUcUCGuCCA-CCUGUGCGUC- -5'
1649 3' -56 NC_001347.2 + 85310 0.69 0.867348
Target:  5'- cCCGGGCUGccccGCAGGUGGugAUcaGCGc -3'
miRNA:   3'- -GGCUCGAUcu--CGUCCACCugUG--CGUc -5'
1649 3' -56 NC_001347.2 + 177655 0.7 0.831983
Target:  5'- -aGAGCguaacggaggacacAGAGCGGGaGGACACGgAGg -3'
miRNA:   3'- ggCUCGa-------------UCUCGUCCaCCUGUGCgUC- -5'
1649 3' -56 NC_001347.2 + 140573 0.7 0.827089
Target:  5'- uCCGGGCggcggugcuggcGGGGguGGUGGACGagacgugaGCGGg -3'
miRNA:   3'- -GGCUCGa-----------UCUCguCCACCUGUg-------CGUC- -5'
1649 3' -56 NC_001347.2 + 36313 0.7 0.794755
Target:  5'- cUCGAGCgAGAGCacugacagGGGUGGcaaaACGCAGu -3'
miRNA:   3'- -GGCUCGaUCUCG--------UCCACCug--UGCGUC- -5'
1649 3' -56 NC_001347.2 + 2426 0.71 0.789455
Target:  5'- cCCGAGCUggaccgcgagcagugGGAGCGGccgcgcugGGACGCGCu- -3'
miRNA:   3'- -GGCUCGA---------------UCUCGUCca------CCUGUGCGuc -5'
1649 3' -56 NC_001347.2 + 98577 0.71 0.758566
Target:  5'- aCCGugcAGCUuGAGCAGGcaaGCACGCAGa -3'
miRNA:   3'- -GGC---UCGAuCUCGUCCaccUGUGCGUC- -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.