miRNA display CGI


Results 1 - 20 of 39 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
15749 3' -58.7 NC_004065.1 + 35437 0.66 0.911836
Target:  5'- uUCGuCUUCGAGGUguccacCGuCGUgCUGGUCGg -3'
miRNA:   3'- -GGC-GAGGUUCCA------GCuGCGgGACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 27436 0.66 0.906123
Target:  5'- uCCGCcCgCGAGuuGUCgGACG-CCUGGUCGa -3'
miRNA:   3'- -GGCGaG-GUUC--CAG-CUGCgGGACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 32268 0.66 0.906123
Target:  5'- aCgGCUCCGAGugcccgcuGUCcGCGUCCUcGGUCu -3'
miRNA:   3'- -GgCGAGGUUC--------CAGcUGCGGGA-CCAGc -5'
15749 3' -58.7 NC_004065.1 + 84685 0.66 0.906123
Target:  5'- -gGCagCCGAGaugaGGCGCCCUGuGUCGa -3'
miRNA:   3'- ggCGa-GGUUCcag-CUGCGGGAC-CAGC- -5'
15749 3' -58.7 NC_004065.1 + 101897 0.66 0.902595
Target:  5'- gCgGCUCCuccgagcugcuggagGAGGaugcUCGAuuuCGCCCUGuGUCGa -3'
miRNA:   3'- -GgCGAGG---------------UUCC----AGCU---GCGGGAC-CAGC- -5'
15749 3' -58.7 NC_004065.1 + 205915 0.66 0.900201
Target:  5'- gCCGCcgaggCCGAcGUCGGCGCCaUGGaCGu -3'
miRNA:   3'- -GGCGa----GGUUcCAGCUGCGGgACCaGC- -5'
15749 3' -58.7 NC_004065.1 + 194954 0.66 0.900201
Target:  5'- cCCGUcucgCCAGcuGGUCGAUGuUCCUGGcCGc -3'
miRNA:   3'- -GGCGa---GGUU--CCAGCUGC-GGGACCaGC- -5'
15749 3' -58.7 NC_004065.1 + 200407 0.66 0.894074
Target:  5'- gCGC-CCGAcGUCGACGacgccaucuaUCUGGUCGg -3'
miRNA:   3'- gGCGaGGUUcCAGCUGCg---------GGACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 225411 0.66 0.89345
Target:  5'- gCCGCUCCcucucgaAGGGUCGugGCgaaugCUGG-Cu -3'
miRNA:   3'- -GGCGAGG-------UUCCAGCugCGg----GACCaGc -5'
15749 3' -58.7 NC_004065.1 + 115045 0.66 0.892196
Target:  5'- gCCGCcagggCCGAGGgcaaCGGCGCgcgcgaggacgcggCCUcGGUCGg -3'
miRNA:   3'- -GGCGa----GGUUCCa---GCUGCG--------------GGA-CCAGC- -5'
15749 3' -58.7 NC_004065.1 + 88708 0.66 0.887744
Target:  5'- gCGCUCUuGGG-CaGCGCCCUgacGGUCu -3'
miRNA:   3'- gGCGAGGuUCCaGcUGCGGGA---CCAGc -5'
15749 3' -58.7 NC_004065.1 + 100500 0.67 0.881213
Target:  5'- aCGCggugCAGGGuguagUCGACGCagagCUGGUCGa -3'
miRNA:   3'- gGCGag--GUUCC-----AGCUGCGg---GACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 183014 0.67 0.874486
Target:  5'- -gGCUCCuGGGgcacuugaaGAUGUUCUGGUCGu -3'
miRNA:   3'- ggCGAGGuUCCag-------CUGCGGGACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 181626 0.67 0.873803
Target:  5'- uCCGUcgUCCGAGGUucuccagcaccuuUGAcaucuuCGCCgUGGUCGg -3'
miRNA:   3'- -GGCG--AGGUUCCA-------------GCU------GCGGgACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 162371 0.67 0.853171
Target:  5'- gCCGCUCCccgacaucaccGAcGcGUCGAUGUCCgGGUCc -3'
miRNA:   3'- -GGCGAGG-----------UU-C-CAGCUGCGGGaCCAGc -5'
15749 3' -58.7 NC_004065.1 + 74799 0.67 0.85095
Target:  5'- gCGCUCgcgcaagaugcugaCGAGcGUggaGACGCCCgGGUCGg -3'
miRNA:   3'- gGCGAG--------------GUUC-CAg--CUGCGGGaCCAGC- -5'
15749 3' -58.7 NC_004065.1 + 224030 0.67 0.84343
Target:  5'- aCCGCUCauguucuucaucugcGGGUCGuCGUCCggcaGGUCGc -3'
miRNA:   3'- -GGCGAGgu-------------UCCAGCuGCGGGa---CCAGC- -5'
15749 3' -58.7 NC_004065.1 + 168757 0.68 0.838066
Target:  5'- -aGCUCCAAGcccGUCGACGCCgCgcaGGccuUCGa -3'
miRNA:   3'- ggCGAGGUUC---CAGCUGCGG-Ga--CC---AGC- -5'
15749 3' -58.7 NC_004065.1 + 198869 0.68 0.838066
Target:  5'- -aGCUCCGgccgcggcGGuGUCGAUGCCC-GaGUCGg -3'
miRNA:   3'- ggCGAGGU--------UC-CAGCUGCGGGaC-CAGC- -5'
15749 3' -58.7 NC_004065.1 + 225583 0.68 0.830261
Target:  5'- cCCGCgaCGAGcUCGAgGCCCgagGGUCa -3'
miRNA:   3'- -GGCGagGUUCcAGCUgCGGGa--CCAGc -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.