miRNA display CGI


Results 1 - 20 of 47 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
24822 5' -62.1 NC_005284.1 + 52209 0.67 0.297396
Target:  5'- -aGCAUGCUCGCGAcGaucacuucccagaaCUCGGCC-GCa -3'
miRNA:   3'- agCGUACGGGCGCU-C--------------GAGCCGGaCGc -5'
24822 5' -62.1 NC_005284.1 + 51624 0.66 0.386353
Target:  5'- cUCGCGcucgacUGUCUGCuuGCUCGGCUguaUGUGa -3'
miRNA:   3'- -AGCGU------ACGGGCGcuCGAGCCGG---ACGC- -5'
24822 5' -62.1 NC_005284.1 + 48763 0.69 0.222912
Target:  5'- -gGCGUGCgCCGCGAGUUgcguugcaUGGCgaaCUGCGa -3'
miRNA:   3'- agCGUACG-GGCGCUCGA--------GCCG---GACGC- -5'
24822 5' -62.1 NC_005284.1 + 47792 0.66 0.377807
Target:  5'- cUCGCGgagGCgacggGCGAGCgcuuggCGGCgCUGCGa -3'
miRNA:   3'- -AGCGUa--CGgg---CGCUCGa-----GCCG-GACGC- -5'
24822 5' -62.1 NC_005284.1 + 47712 0.66 0.386353
Target:  5'- aCGCGcGCUCGCGuGCgcagaaGGCCgUGCu -3'
miRNA:   3'- aGCGUaCGGGCGCuCGag----CCGG-ACGc -5'
24822 5' -62.1 NC_005284.1 + 47215 0.67 0.314134
Target:  5'- cCGCGUGCaggGCGuGCUCGaGCCgGUGc -3'
miRNA:   3'- aGCGUACGgg-CGCuCGAGC-CGGaCGC- -5'
24822 5' -62.1 NC_005284.1 + 46907 0.67 0.314134
Target:  5'- uUCGCAUGCUgGCuaauGGGCU-GGCCUacGUGg -3'
miRNA:   3'- -AGCGUACGGgCG----CUCGAgCCGGA--CGC- -5'
24822 5' -62.1 NC_005284.1 + 45852 0.66 0.369389
Target:  5'- aCGCGuUGUuuGCGAuccgcugauacaGCUCGGCUgucGCGu -3'
miRNA:   3'- aGCGU-ACGggCGCU------------CGAGCCGGa--CGC- -5'
24822 5' -62.1 NC_005284.1 + 45567 0.66 0.337022
Target:  5'- gCGCGUcGCCCGCGcaCUCGGCUauCGa -3'
miRNA:   3'- aGCGUA-CGGGCGCucGAGCCGGacGC- -5'
24822 5' -62.1 NC_005284.1 + 45536 0.66 0.352943
Target:  5'- aCGCAUGCuCCGCGcuCUauGCCgccGCGu -3'
miRNA:   3'- aGCGUACG-GGCGCucGAgcCGGa--CGC- -5'
24822 5' -62.1 NC_005284.1 + 45209 0.66 0.377807
Target:  5'- gCGCGaucGCCCugcgcuuugGCGAGCgCuGCCUGCGc -3'
miRNA:   3'- aGCGUa--CGGG---------CGCUCGaGcCGGACGC- -5'
24822 5' -62.1 NC_005284.1 + 45135 1.07 0.000278
Target:  5'- cUCGCAUGCCCGCGAGCUCGGCCUGCGc -3'
miRNA:   3'- -AGCGUACGGGCGCUCGAGCCGGACGC- -5'
24822 5' -62.1 NC_005284.1 + 44960 0.66 0.375268
Target:  5'- -gGCGUGCCCGUGAuGCgcgCGccgauuuccugacuGCCgGCGa -3'
miRNA:   3'- agCGUACGGGCGCU-CGa--GC--------------CGGaCGC- -5'
24822 5' -62.1 NC_005284.1 + 44782 0.68 0.265364
Target:  5'- gCGCAaGgCCGCGGuccGuCUCGGCCaGCGa -3'
miRNA:   3'- aGCGUaCgGGCGCU---C-GAGCCGGaCGC- -5'
24822 5' -62.1 NC_005284.1 + 44715 0.69 0.222349
Target:  5'- gUCGCGgucGCCgCGCGuuccGCUCGcucacgaGCCUGCGu -3'
miRNA:   3'- -AGCGUa--CGG-GCGCu---CGAGC-------CGGACGC- -5'
24822 5' -62.1 NC_005284.1 + 43173 0.67 0.32163
Target:  5'- uUCGCGcUGCacgucaCGCuGAcGCUCGGCC-GCGu -3'
miRNA:   3'- -AGCGU-ACGg-----GCG-CU-CGAGCCGGaCGC- -5'
24822 5' -62.1 NC_005284.1 + 42912 0.71 0.172399
Target:  5'- cCGCAUcGCCCGCuucacgccGAcGCgccagUCGGCCUGCa -3'
miRNA:   3'- aGCGUA-CGGGCG--------CU-CG-----AGCCGGACGc -5'
24822 5' -62.1 NC_005284.1 + 41954 0.67 0.299539
Target:  5'- uUCGCAgacgaagaGUCCGCGGGCgcgaagCGGCg-GCGu -3'
miRNA:   3'- -AGCGUa-------CGGGCGCUCGa-----GCCGgaCGC- -5'
24822 5' -62.1 NC_005284.1 + 40296 0.66 0.377807
Target:  5'- gUCGgAUGUCUGCucgaAGCccgCGGCCUGUa -3'
miRNA:   3'- -AGCgUACGGGCGc---UCGa--GCCGGACGc -5'
24822 5' -62.1 NC_005284.1 + 39423 0.71 0.167952
Target:  5'- gUCGUcgAUGCCgauCGAGCcaUCGGCCUGCa -3'
miRNA:   3'- -AGCG--UACGGgc-GCUCG--AGCCGGACGc -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.