miRNA display CGI


Results 1 - 20 of 85 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
24534 3' -61.2 NC_005264.1 + 101223 0.68 0.586417
Target:  5'- gCCCCCAGuauGCCGGC-GG-CGACGGg -3'
miRNA:   3'- -GGGGGUCcc-CGGCUGuCCaGUUGCCg -5'
24534 3' -61.2 NC_005264.1 + 157336 0.7 0.501433
Target:  5'- gCCUUCGcGGaGGCCGACgaGGGUUGGCGGg -3'
miRNA:   3'- -GGGGGU-CC-CCGGCUG--UCCAGUUGCCg -5'
24534 3' -61.2 NC_005264.1 + 148640 0.7 0.501433
Target:  5'- uCCgCCGu-GGCCGAUGGGgCGACGGCg -3'
miRNA:   3'- -GGgGGUccCCGGCUGUCCaGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 156125 0.7 0.519915
Target:  5'- cCCgCCCaAGGuGGUgGGCAGGaCGAgGGCg -3'
miRNA:   3'- -GG-GGG-UCC-CCGgCUGUCCaGUUgCCG- -5'
24534 3' -61.2 NC_005264.1 + 143639 0.69 0.547169
Target:  5'- aUCCCAaggucguGGGGCCGAC-GGUCGGCcccGGa -3'
miRNA:   3'- gGGGGU-------CCCCGGCUGuCCAGUUG---CCg -5'
24534 3' -61.2 NC_005264.1 + 160441 0.69 0.556675
Target:  5'- uUCCUAGGcaGGCCGGCgccgggcuccugcGGG-CGACGGCc -3'
miRNA:   3'- gGGGGUCC--CCGGCUG-------------UCCaGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 117951 0.69 0.557628
Target:  5'- gCCCCCAGacgacgacGGGCCcgccucccCAGGcugcagaucucUCGACGGCa -3'
miRNA:   3'- -GGGGGUC--------CCCGGcu------GUCC-----------AGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 121910 0.69 0.567185
Target:  5'- -aCCgGGGcgcGGCgCGGCGGGgagggCGACGGCg -3'
miRNA:   3'- ggGGgUCC---CCG-GCUGUCCa----GUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 95343 0.68 0.585452
Target:  5'- -aUCCGaggcaauGGGGCCGACGGG-CGGCGcGUg -3'
miRNA:   3'- ggGGGU-------CCCCGGCUGUCCaGUUGC-CG- -5'
24534 3' -61.2 NC_005264.1 + 161935 0.7 0.498685
Target:  5'- cCCCCCAgcggcccgcgacacGGGGCCGuACAcccaGUCGuacguccgggcGCGGCa -3'
miRNA:   3'- -GGGGGU--------------CCCCGGC-UGUc---CAGU-----------UGCCG- -5'
24534 3' -61.2 NC_005264.1 + 57986 0.7 0.483244
Target:  5'- gUCCCCGcgcGGcGGCCGu--GGcUCAGCGGCc -3'
miRNA:   3'- -GGGGGU---CC-CCGGCuguCC-AGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 79209 0.71 0.439245
Target:  5'- aCCCUGGGgcuaGGCUGcguGCAGG-CGGCGGCg -3'
miRNA:   3'- gGGGGUCC----CCGGC---UGUCCaGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 158103 0.8 0.136174
Target:  5'- aCCCCCGGacgccGGCuCGGCGGG-CAGCGGCg -3'
miRNA:   3'- -GGGGGUCc----CCG-GCUGUCCaGUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 124425 0.75 0.270215
Target:  5'- uUgCCAGGGGCCaGCAGGgCGuacGCGGCa -3'
miRNA:   3'- gGgGGUCCCCGGcUGUCCaGU---UGCCG- -5'
24534 3' -61.2 NC_005264.1 + 88033 0.74 0.282585
Target:  5'- uUCCUC-GGGGCCGAagcguaCAGGUCAAUacgGGCg -3'
miRNA:   3'- -GGGGGuCCCCGGCU------GUCCAGUUG---CCG- -5'
24534 3' -61.2 NC_005264.1 + 154516 0.73 0.336538
Target:  5'- aCCCUAGGGGaCGACGGcGaCGccGCGGCg -3'
miRNA:   3'- gGGGGUCCCCgGCUGUC-CaGU--UGCCG- -5'
24534 3' -61.2 NC_005264.1 + 127024 0.73 0.351149
Target:  5'- gCCgCCAuugcGGGGCCGGCAGaGgcgcccgccaCGACGGCg -3'
miRNA:   3'- -GGgGGU----CCCCGGCUGUC-Ca---------GUUGCCG- -5'
24534 3' -61.2 NC_005264.1 + 123042 0.73 0.358621
Target:  5'- gCCCaCCAGGGGCuUGGCGGGcCGAU-GCa -3'
miRNA:   3'- -GGG-GGUCCCCG-GCUGUCCaGUUGcCG- -5'
24534 3' -61.2 NC_005264.1 + 20302 0.73 0.366204
Target:  5'- gCCCCgAGGGGCUGA--GGUCgcuguaucGugGGCa -3'
miRNA:   3'- -GGGGgUCCCCGGCUguCCAG--------UugCCG- -5'
24534 3' -61.2 NC_005264.1 + 18540 0.71 0.422295
Target:  5'- uCCCCCugAGGGcgcGCCGGCGucaGUCGgaGCGGCa -3'
miRNA:   3'- -GGGGG--UCCC---CGGCUGUc--CAGU--UGCCG- -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.