miRNA display CGI


Results 1 - 12 of 12 are showing below:
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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 15596 0.67 0.960895
Target:  5'- cCCGGUAAGgcagccagCCAGGCA-CCa- -3'
miRNA:   3'- -GGCCGUUCaa------GGUCCGUaGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 26747 0.66 0.982106
Target:  5'- gUGGUuAGUUCUAGGCAgcUCCg- -3'
miRNA:   3'- gGCCGuUCAAGGUCCGU--AGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 27774 0.67 0.971447
Target:  5'- gCCGGguAGUUUCAGGgGUCa-- -3'
miRNA:   3'- -GGCCguUCAAGGUCCgUAGgau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 57038 0.66 0.98615
Target:  5'- aCCGGCAAagcCCAGGCGauUCCc- -3'
miRNA:   3'- -GGCCGUUcaaGGUCCGU--AGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 103646 0.68 0.95252
Target:  5'- gCUGGCGGGU--CGGGUGUCCUGa -3'
miRNA:   3'- -GGCCGUUCAagGUCCGUAGGAU- -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 121144 1.02 0.015907
Target:  5'- aCCGGCAAGUUCCAGGCAUCCUAa -3'
miRNA:   3'- -GGCCGUUCAAGGUCCGUAGGAU- -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 + 132481 0.67 0.960895
Target:  5'- aCCGGUAug-UCCAGGgGUCCc- -3'
miRNA:   3'- -GGCCGUucaAGGUCCgUAGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 - 54403 0.66 0.984226
Target:  5'- aCUGGuCGAGUaCCAGGCggCCa- -3'
miRNA:   3'- -GGCC-GUUCAaGGUCCGuaGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 - 57025 0.68 0.95252
Target:  5'- gCGGCAgaucgagauagAGUUCCAGGCAUg--- -3'
miRNA:   3'- gGCCGU-----------UCAAGGUCCGUAggau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 - 68180 0.68 0.943017
Target:  5'- aCGGCGGagUCCgAGGCGUCCa- -3'
miRNA:   3'- gGCCGUUcaAGG-UCCGUAGGau -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 - 103571 0.67 0.973581
Target:  5'- gCCaGGUAGGUUUCcuggaguucagaaaGGGCGUCCUGu -3'
miRNA:   3'- -GG-CCGUUCAAGG--------------UCCGUAGGAU- -5'
MIMAT0002190 kshv-miR-K12-5 -49.5 NC_003409.1 - 111741 0.68 0.937298
Target:  5'- uCCGGCGGGUuagcaguccggggUCCAcGGCgauGUCCUGa -3'
miRNA:   3'- -GGCCGUUCA-------------AGGU-CCG---UAGGAU- -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.