miRNA display CGI


Results 1 - 20 of 53 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
5539 3' -65.2 NC_001806.1 + 32943 0.66 0.491001
Target:  5'- -cCGGGCcguuguggGGcCCCGGGCCGgGGCc--- -3'
miRNA:   3'- caGUCCG--------UC-GGGCCCGGCgCCGagac -5'
5539 3' -65.2 NC_001806.1 + 5773 0.66 0.491001
Target:  5'- --gGGGCggGGCCCGGGCCccgacuuccCGGUUCg- -3'
miRNA:   3'- cagUCCG--UCGGGCCCGGc--------GCCGAGac -5'
5539 3' -65.2 NC_001806.1 + 49356 0.66 0.481941
Target:  5'- cGUCccGGCAGCgccCCGGGCCcgauGCGGCcCg- -3'
miRNA:   3'- -CAGu-CCGUCG---GGCCCGG----CGCCGaGac -5'
5539 3' -65.2 NC_001806.1 + 94195 0.66 0.472963
Target:  5'- -cCGGGCcuggaGGCCCaGGCCGgGGC-CUu -3'
miRNA:   3'- caGUCCG-----UCGGGcCCGGCgCCGaGAc -5'
5539 3' -65.2 NC_001806.1 + 108152 0.66 0.46407
Target:  5'- -aCAcGCAGCCCGuGGCCGCaauugcgcccgGGuUUCUGg -3'
miRNA:   3'- caGUcCGUCGGGC-CCGGCG-----------CC-GAGAC- -5'
5539 3' -65.2 NC_001806.1 + 3608 0.66 0.46407
Target:  5'- -gCGGGCAccgcgcgcucGCCCGGuGCgGCGGCg--- -3'
miRNA:   3'- caGUCCGU----------CGGGCC-CGgCGCCGagac -5'
5539 3' -65.2 NC_001806.1 + 31727 0.66 0.455265
Target:  5'- aGUgGGGguGCCauguuGGGCa--GGCUCUGg -3'
miRNA:   3'- -CAgUCCguCGGg----CCCGgcgCCGAGAC- -5'
5539 3' -65.2 NC_001806.1 + 150879 0.66 0.455265
Target:  5'- -gCGGGCcagGGCCCGGGCaCG-GGcCUCg- -3'
miRNA:   3'- caGUCCG---UCGGGCCCG-GCgCC-GAGac -5'
5539 3' -65.2 NC_001806.1 + 147984 0.66 0.455265
Target:  5'- --gGGGCcagacGCCCcccgcGGcGCCGCGGCUCg- -3'
miRNA:   3'- cagUCCGu----CGGG-----CC-CGGCGCCGAGac -5'
5539 3' -65.2 NC_001806.1 + 12819 0.66 0.454389
Target:  5'- uUCGGGguGgCCGGGggaugguaaggcgUCGCGGCgucCUGg -3'
miRNA:   3'- cAGUCCguCgGGCCC-------------GGCGCCGa--GAC- -5'
5539 3' -65.2 NC_001806.1 + 24001 0.66 0.446551
Target:  5'- -gCuGGCGGCCCuGGCCaacCGGCUgUGc -3'
miRNA:   3'- caGuCCGUCGGGcCCGGc--GCCGAgAC- -5'
5539 3' -65.2 NC_001806.1 + 20350 0.66 0.446551
Target:  5'- -gCGGGCGGCCCuuGGGCCGCccGC-Cg- -3'
miRNA:   3'- caGUCCGUCGGG--CCCGGCGc-CGaGac -5'
5539 3' -65.2 NC_001806.1 + 107028 0.67 0.43793
Target:  5'- -cCGGGUuggccGCCCgcgGGGCCGCgGGCUgUGc -3'
miRNA:   3'- caGUCCGu----CGGG---CCCGGCG-CCGAgAC- -5'
5539 3' -65.2 NC_001806.1 + 26955 0.67 0.43793
Target:  5'- cUC-GGCcGCCCGccuggcgcGCCGCGGCUCg- -3'
miRNA:   3'- cAGuCCGuCGGGCc-------CGGCGCCGAGac -5'
5539 3' -65.2 NC_001806.1 + 25911 0.67 0.43793
Target:  5'- ---cGGCGGUCCGGGCgGCGuGCg--- -3'
miRNA:   3'- caguCCGUCGGGCCCGgCGC-CGagac -5'
5539 3' -65.2 NC_001806.1 + 148100 0.67 0.43793
Target:  5'- --gGGGCGcuGUCCGaGCCGCGGCcggCUGg -3'
miRNA:   3'- cagUCCGU--CGGGCcCGGCGCCGa--GAC- -5'
5539 3' -65.2 NC_001806.1 + 38274 0.67 0.43793
Target:  5'- -aCGGGCGGaccgCCGGGCgaGCGGCgUCg- -3'
miRNA:   3'- caGUCCGUCg---GGCCCGg-CGCCG-AGac -5'
5539 3' -65.2 NC_001806.1 + 384 0.67 0.43793
Target:  5'- -gCGGGgGGCCCGGGCUGCcacaGGUg--- -3'
miRNA:   3'- caGUCCgUCGGGCCCGGCG----CCGagac -5'
5539 3' -65.2 NC_001806.1 + 76589 0.67 0.412655
Target:  5'- -cCGGGCccAGCUCGaGGCCGaGGgUCUGg -3'
miRNA:   3'- caGUCCG--UCGGGC-CCGGCgCCgAGAC- -5'
5539 3' -65.2 NC_001806.1 + 27134 0.67 0.396314
Target:  5'- --gAGGCGGCCUGGGucuuCCGCGgaGCUCc- -3'
miRNA:   3'- cagUCCGUCGGGCCC----GGCGC--CGAGac -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.