miRNA display CGI


Results 1 - 20 of 24 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
28470 3' -57.5 NC_005946.1 + 57592 0.66 0.775291
Target:  5'- uACuuGGCCUUgUugGggaGCAGGUUGGCCc -3'
miRNA:   3'- -UGuuCCGGGGgAugU---CGUUCAGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 101838 0.66 0.755992
Target:  5'- gACAGGGCUgucccaucauggUCCUgACGGCGuuggAGaCGGCCa -3'
miRNA:   3'- -UGUUCCGG------------GGGA-UGUCGU----UCaGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 15395 0.66 0.755992
Target:  5'- uCGAGGaCgUCCacguUAUAGUcaGAGUCGGCCa -3'
miRNA:   3'- uGUUCC-GgGGG----AUGUCG--UUCAGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 93869 0.66 0.735239
Target:  5'- cACGA-GCCCUCUGaccugacCAGCAAGgaGGCCu -3'
miRNA:   3'- -UGUUcCGGGGGAU-------GUCGUUCagCCGG- -5'
28470 3' -57.5 NC_005946.1 + 58846 0.66 0.726214
Target:  5'- ----uGCCCCUgugGCGGUGAGU-GGCCa -3'
miRNA:   3'- uguucCGGGGGa--UGUCGUUCAgCCGG- -5'
28470 3' -57.5 NC_005946.1 + 92554 0.68 0.653183
Target:  5'- gACGGGGCCuacauauCCCUGCuGCuggGGUCcagggugguGGCCg -3'
miRNA:   3'- -UGUUCCGG-------GGGAUGuCGu--UCAG---------CCGG- -5'
28470 3' -57.5 NC_005946.1 + 34858 0.68 0.650055
Target:  5'- uACGAGGUCCCggugugcaaagagUGCGGCAGGauaUCGGaCCa -3'
miRNA:   3'- -UGUUCCGGGGg------------AUGUCGUUC---AGCC-GG- -5'
28470 3' -57.5 NC_005946.1 + 84738 0.68 0.643795
Target:  5'- -aGAGGCUCCUgggaaagACGGCAgagauAGaCGGCCu -3'
miRNA:   3'- ugUUCCGGGGGa------UGUCGU-----UCaGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 11512 0.68 0.643795
Target:  5'- uACGAGGCCgCCCU--GGCGuacacugUGGCCa -3'
miRNA:   3'- -UGUUCCGG-GGGAugUCGUuca----GCCGG- -5'
28470 3' -57.5 NC_005946.1 + 56017 0.68 0.633354
Target:  5'- cGCAAGGCCCCgUuccCAGUccacGaCGGCCc -3'
miRNA:   3'- -UGUUCCGGGGgAu--GUCGuu--CaGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 23185 0.69 0.591664
Target:  5'- -gGAGGCaguaCCUgGCcGCaAAGUCGGCCa -3'
miRNA:   3'- ugUUCCGg---GGGaUGuCG-UUCAGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 85117 0.7 0.540287
Target:  5'- gAC-AGG-CUCCUGgAGCAGGccUCGGCCg -3'
miRNA:   3'- -UGuUCCgGGGGAUgUCGUUC--AGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 32395 0.7 0.524147
Target:  5'- cCAAGcacGUCCCCgACGGCAGGUCcgucuacucgaagcaGGCCg -3'
miRNA:   3'- uGUUC---CGGGGGaUGUCGUUCAG---------------CCGG- -5'
28470 3' -57.5 NC_005946.1 + 78075 0.7 0.52014
Target:  5'- -gGGGGCCCuCCUcgACAGCuuGUCcucgGGCCu -3'
miRNA:   3'- ugUUCCGGG-GGA--UGUCGuuCAG----CCGG- -5'
28470 3' -57.5 NC_005946.1 + 57252 0.71 0.480791
Target:  5'- cGCGcAGGCCCCCaucGCAGaagGGUCcaaGGCCa -3'
miRNA:   3'- -UGU-UCCGGGGGa--UGUCgu-UCAG---CCGG- -5'
28470 3' -57.5 NC_005946.1 + 58128 0.72 0.415696
Target:  5'- --uGGGCCCUgUugAGCucGUCGGUCu -3'
miRNA:   3'- uguUCCGGGGgAugUCGuuCAGCCGG- -5'
28470 3' -57.5 NC_005946.1 + 49390 0.72 0.389496
Target:  5'- cACGGGGCCCCCUGCgaaAGuCAGGaCGuGCg -3'
miRNA:   3'- -UGUUCCGGGGGAUG---UC-GUUCaGC-CGg -5'
28470 3' -57.5 NC_005946.1 + 29513 0.73 0.364401
Target:  5'- -aGAGGCCCCCggaGCGGUggGUccaacCGGUCc -3'
miRNA:   3'- ugUUCCGGGGGa--UGUCGuuCA-----GCCGG- -5'
28470 3' -57.5 NC_005946.1 + 69973 0.73 0.356288
Target:  5'- cCAGGGCCCUC-GCAGCGggacguuuggaAGUCcuGGCCg -3'
miRNA:   3'- uGUUCCGGGGGaUGUCGU-----------UCAG--CCGG- -5'
28470 3' -57.5 NC_005946.1 + 84991 0.73 0.348304
Target:  5'- gGCAAGGCCCagga-GGCccuGUCGGCCu -3'
miRNA:   3'- -UGUUCCGGGggaugUCGuu-CAGCCGG- -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.