miRNA display CGI


Results 1 - 20 of 21 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
18628 5' -60.2 NC_004682.1 + 38065 0.66 0.459295
Target:  5'- gGGUCGGUCca-ACCG-GUCACCGcGAc -3'
miRNA:   3'- aCCAGCCGGacgUGGUgCAGUGGC-CU- -5'
18628 5' -60.2 NC_004682.1 + 43456 0.66 0.449681
Target:  5'- aGGucUCGGCCaggGCaacgcuguagacGCCAagcuggaaguCGUCACCGGGg -3'
miRNA:   3'- aCC--AGCCGGa--CG------------UGGU----------GCAGUGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 10839 0.66 0.448726
Target:  5'- gGGccUCGGCCUcGCGCagACGcuccgcaguucguUCGCCGGGu -3'
miRNA:   3'- aCC--AGCCGGA-CGUGg-UGC-------------AGUGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 45649 0.66 0.412379
Target:  5'- -aGUCGGCCUGCuucaGCC-CGUCACg--- -3'
miRNA:   3'- acCAGCCGGACG----UGGuGCAGUGgccu -5'
18628 5' -60.2 NC_004682.1 + 27640 0.67 0.403356
Target:  5'- cGGaCGGCCUcaGCCAgGUCgucaaugucguGCCGGAu -3'
miRNA:   3'- aCCaGCCGGAcgUGGUgCAG-----------UGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 49110 0.67 0.391815
Target:  5'- cGGUCGGCgUGCcgacguaggacagaGCCGacuuacCGUCugUGGGa -3'
miRNA:   3'- aCCAGCCGgACG--------------UGGU------GCAGugGCCU- -5'
18628 5' -60.2 NC_004682.1 + 47596 0.67 0.368542
Target:  5'- gGGUU-GCCUGCGCCGCcgauGUCGCCc-- -3'
miRNA:   3'- aCCAGcCGGACGUGGUG----CAGUGGccu -5'
18628 5' -60.2 NC_004682.1 + 23255 0.67 0.360167
Target:  5'- cGGU-GGCCUGCGCgAgGagCugCGGAc -3'
miRNA:   3'- aCCAgCCGGACGUGgUgCa-GugGCCU- -5'
18628 5' -60.2 NC_004682.1 + 42478 0.67 0.359337
Target:  5'- gGGUCGGCCUcccugcgGcCACCucaGCGUCGaacagaCGGAu -3'
miRNA:   3'- aCCAGCCGGA-------C-GUGG---UGCAGUg-----GCCU- -5'
18628 5' -60.2 NC_004682.1 + 44528 0.68 0.351925
Target:  5'- gGGUCGGCCUGUccgguGCCGUGg-ACCGuGAa -3'
miRNA:   3'- aCCAGCCGGACG-----UGGUGCagUGGC-CU- -5'
18628 5' -60.2 NC_004682.1 + 44320 0.68 0.351925
Target:  5'- gGGUCGGaguCUUGCACCAuCGggCugCGGu -3'
miRNA:   3'- aCCAGCC---GGACGUGGU-GCa-GugGCCu -5'
18628 5' -60.2 NC_004682.1 + 43129 0.68 0.343818
Target:  5'- cUGGUCGGUCgGCagccGCCACG-CuCCGGu -3'
miRNA:   3'- -ACCAGCCGGaCG----UGGUGCaGuGGCCu -5'
18628 5' -60.2 NC_004682.1 + 47561 0.68 0.335056
Target:  5'- aGGUgaacguaUGGCUgGCACCGcCGcCACCGGGu -3'
miRNA:   3'- aCCA-------GCCGGaCGUGGU-GCaGUGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 41089 0.69 0.290872
Target:  5'- cGGUCGGCUUcgucGCgAUCAgGUCGCCGaGGa -3'
miRNA:   3'- aCCAGCCGGA----CG-UGGUgCAGUGGC-CU- -5'
18628 5' -60.2 NC_004682.1 + 26241 0.7 0.266226
Target:  5'- gGGUCGGagucggagcacgacaCCaGCACCGCGuUCGCgGGGa -3'
miRNA:   3'- aCCAGCC---------------GGaCGUGGUGC-AGUGgCCU- -5'
18628 5' -60.2 NC_004682.1 + 39013 0.7 0.232463
Target:  5'- uUGGugaUCGGCUUGCGCUcgGCcUCGCCGGu -3'
miRNA:   3'- -ACC---AGCCGGACGUGG--UGcAGUGGCCu -5'
18628 5' -60.2 NC_004682.1 + 5196 0.7 0.232463
Target:  5'- cGGgcugaagcaGGCCgacUGCACCAcCGUCaACCGGAu -3'
miRNA:   3'- aCCag-------CCGG---ACGUGGU-GCAG-UGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 34329 0.72 0.174808
Target:  5'- -aGUCGGCCaGCAuCCGCGUCugAUCGGGg -3'
miRNA:   3'- acCAGCCGGaCGU-GGUGCAG--UGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 26368 0.72 0.174808
Target:  5'- cGGcgcgcagCGGCCUccuggaucuGCuuCCACGUCGCCGGGu -3'
miRNA:   3'- aCCa------GCCGGA---------CGu-GGUGCAGUGGCCU- -5'
18628 5' -60.2 NC_004682.1 + 17902 0.75 0.104681
Target:  5'- cGGUCGGuCCUGaccgaGCUggaGCGUCACCGGc -3'
miRNA:   3'- aCCAGCC-GGACg----UGG---UGCAGUGGCCu -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.