miRNA display CGI


Results 1 - 20 of 40 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
10419 3' -58.2 NC_002687.1 + 252267 0.73 0.625658
Target:  5'- -gGUCGGGUCGCCGgcccaUGCUUUAUCCg -3'
miRNA:   3'- gaCGGCCCAGUGGCg----AUGAGGUAGGg -5'
10419 3' -58.2 NC_002687.1 + 146955 0.67 0.937378
Target:  5'- -aGCCGGu---CCGCUACUCCAaCUa -3'
miRNA:   3'- gaCGGCCcaguGGCGAUGAGGUaGGg -5'
10419 3' -58.2 NC_002687.1 + 10550 0.67 0.922956
Target:  5'- -cGCuCGGGcgaUCGCCGUcggUAC-CCAUUCCa -3'
miRNA:   3'- gaCG-GCCC---AGUGGCG---AUGaGGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 85263 0.67 0.917735
Target:  5'- -gGCCcuaaGGGUC-CCGCUGgcccacaaggcCUCCcugGUCCCg -3'
miRNA:   3'- gaCGG----CCCAGuGGCGAU-----------GAGG---UAGGG- -5'
10419 3' -58.2 NC_002687.1 + 268537 0.69 0.861677
Target:  5'- gUGaCCGGGgcaGCgGCUGCUCCAUaaCa -3'
miRNA:   3'- gAC-GGCCCag-UGgCGAUGAGGUAggG- -5'
10419 3' -58.2 NC_002687.1 + 307445 0.69 0.839617
Target:  5'- gCUGCCG--UCACCGCcgucACcgCCGUCCCc -3'
miRNA:   3'- -GACGGCccAGUGGCGa---UGa-GGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 85828 0.66 0.941771
Target:  5'- -cGCUGG-UC-CCGCUGgUCCcgcugGUCCCg -3'
miRNA:   3'- gaCGGCCcAGuGGCGAUgAGG-----UAGGG- -5'
10419 3' -58.2 NC_002687.1 + 71187 0.67 0.937378
Target:  5'- uCUGgaCGGGUCAgaCGuCUACUCgGUCaCCg -3'
miRNA:   3'- -GACg-GCCCAGUg-GC-GAUGAGgUAG-GG- -5'
10419 3' -58.2 NC_002687.1 + 307870 0.67 0.910638
Target:  5'- -cGCCcucGGUCACUuuaGCUGacggcguccuuuucCUCCGUCCCu -3'
miRNA:   3'- gaCGGc--CCAGUGG---CGAU--------------GAGGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 291384 0.71 0.774061
Target:  5'- gCUGCUGcGGUCGCUGCUugcccgggcGCUCUuUCUCu -3'
miRNA:   3'- -GACGGC-CCAGUGGCGA---------UGAGGuAGGG- -5'
10419 3' -58.2 NC_002687.1 + 136631 0.72 0.710819
Target:  5'- gUGUCGGGUCAacuuuccaUCGCUGCUCgAugucgucaaacuUCCCg -3'
miRNA:   3'- gACGGCCCAGU--------GGCGAUGAGgU------------AGGG- -5'
10419 3' -58.2 NC_002687.1 + 241228 0.66 0.943471
Target:  5'- -cGCCGGGUCgaugcccaaccuaggAUCGUacuucuuggccUGCUCCGacgCCCa -3'
miRNA:   3'- gaCGGCCCAG---------------UGGCG-----------AUGAGGUa--GGG- -5'
10419 3' -58.2 NC_002687.1 + 315824 0.71 0.765297
Target:  5'- -cGCCGGGUgcCGCCGCcGCaCCcgaagAUCCCg -3'
miRNA:   3'- gaCGGCCCA--GUGGCGaUGaGG-----UAGGG- -5'
10419 3' -58.2 NC_002687.1 + 133145 0.67 0.932778
Target:  5'- gUGCUguGGGUCGuuGCUAUU--GUCCCu -3'
miRNA:   3'- gACGG--CCCAGUggCGAUGAggUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 12848 0.66 0.949946
Target:  5'- -aGCCGuGG-UACUGCUGCg-CGUCCUg -3'
miRNA:   3'- gaCGGC-CCaGUGGCGAUGagGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 333607 0.66 0.941341
Target:  5'- gUGCaCGGGacaCACUGCauaGCUCCAccgagacUCCCu -3'
miRNA:   3'- gACG-GCCCa--GUGGCGa--UGAGGU-------AGGG- -5'
10419 3' -58.2 NC_002687.1 + 226110 0.7 0.824083
Target:  5'- uCUGUagaGcGGUCGCUGUcACUaCCAUCCCc -3'
miRNA:   3'- -GACGg--C-CCAGUGGCGaUGA-GGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 208887 0.69 0.853768
Target:  5'- gCUGCCuccaucGUCGCUGCUGCUUCcaucgucgcugcuGUCCCa -3'
miRNA:   3'- -GACGGcc----CAGUGGCGAUGAGG-------------UAGGG- -5'
10419 3' -58.2 NC_002687.1 + 145819 0.69 0.868677
Target:  5'- -cGCCGGGgCGCUGggucaGCUCC-UCCCa -3'
miRNA:   3'- gaCGGCCCaGUGGCga---UGAGGuAGGG- -5'
10419 3' -58.2 NC_002687.1 + 215261 0.68 0.888556
Target:  5'- gUGCagCGGGUCaAUCGgugGCUCCAUCUCu -3'
miRNA:   3'- gACG--GCCCAG-UGGCga-UGAGGUAGGG- -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.