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 + 695 0.7 0.798828
Target:  5'- gUGCaCGGGacaCACCGCauaGCUCCAccgagacUCCCu -3'
miRNA:   3'- gACG-GCCCa--GUGGCGa--UGAGGU-------AGGG- -5'
10419 3' -58.2 NC_002687.1 + 1222 0.7 0.798828
Target:  5'- gUGCaCGGGacaCACCGCauaGCUCCAccgagacUCCCu -3'
miRNA:   3'- gACG-GCCCa--GUGGCGa--UGAGGU-------AGGG- -5'
10419 3' -58.2 NC_002687.1 + 1748 0.66 0.941341
Target:  5'- gUGCaCGGGacaCACUGCauaGCUCCAccgagacUCCCu -3'
miRNA:   3'- gACG-GCCCa--GUGGCGa--UGAGGU-------AGGG- -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 + 12848 0.66 0.949946
Target:  5'- -aGCCGuGG-UACUGCUGCg-CGUCCUg -3'
miRNA:   3'- gaCGGC-CCaGUGGCGAUGagGUAGGG- -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 + 72211 0.68 0.888556
Target:  5'- -cGCCaGGGUUACCGaCUGg-CCAggCCCg -3'
miRNA:   3'- gaCGG-CCCAGUGGC-GAUgaGGUa-GGG- -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 + 85828 0.66 0.941771
Target:  5'- -cGCUGG-UC-CCGCUGgUCCcgcugGUCCCg -3'
miRNA:   3'- gaCGGCCcAGuGGCGAUgAGG-----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 + 136631 0.72 0.710819
Target:  5'- gUGUCGGGUCAacuuuccaUCGCUGCUCgAugucgucaaacuUCCCg -3'
miRNA:   3'- gACGGCCCAGU--------GGCGAUGAGgU------------AGGG- -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 + 146955 0.67 0.937378
Target:  5'- -aGCCGGu---CCGCUACUCCAaCUa -3'
miRNA:   3'- gaCGGCCcaguGGCGAUGAGGUaGGg -5'
10419 3' -58.2 NC_002687.1 + 159744 0.71 0.72929
Target:  5'- uCUGUCGGcGUCGuCgGCUugUgCCAUCCUg -3'
miRNA:   3'- -GACGGCC-CAGU-GgCGAugA-GGUAGGG- -5'
10419 3' -58.2 NC_002687.1 + 168021 0.67 0.932778
Target:  5'- gCUGgCGGGUUcgACCGuCUACUUCGaCCg -3'
miRNA:   3'- -GACgGCCCAG--UGGC-GAUGAGGUaGGg -5'
10419 3' -58.2 NC_002687.1 + 208513 0.67 0.922956
Target:  5'- gCUGUCGGG-CACgGCaUGCUUC-UCCUc -3'
miRNA:   3'- -GACGGCCCaGUGgCG-AUGAGGuAGGG- -5'
10419 3' -58.2 NC_002687.1 + 208610 0.66 0.941771
Target:  5'- -cGUCGucGUCACUGCUGCUuCCAUCg- -3'
miRNA:   3'- gaCGGCc-CAGUGGCGAUGA-GGUAGgg -5'
10419 3' -58.2 NC_002687.1 + 208726 0.7 0.782715
Target:  5'- gCUGCUGcuuccaucGUCGCUGCUGCUCCcaucGUCCUu -3'
miRNA:   3'- -GACGGCc-------CAGUGGCGAUGAGG----UAGGG- -5'
10419 3' -58.2 NC_002687.1 + 208757 0.66 0.941771
Target:  5'- -cGUCGucGUCACUGCUGCUuCCAUCg- -3'
miRNA:   3'- gaCGGCc-CAGUGGCGAUGA-GGUAGgg -5'
10419 3' -58.2 NC_002687.1 + 208887 0.69 0.853768
Target:  5'- gCUGCCuccaucGUCGCUGCUGCUUCcaucgucgcugcuGUCCCa -3'
miRNA:   3'- -GACGGcc----CAGUGGCGAUGAGG-------------UAGGG- -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.