miRNA display CGI


Results 1 - 13 of 13 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
11378 3' -58.6 NC_003084.1 + 53924 0.66 0.722536
Target:  5'- aCCuGCUCCGGGUUcuggucgcgCAGCUCgUGGCa-- -3'
miRNA:   3'- -GGuCGAGGUCUAG---------GUCGAG-GCCGcuu -5'
11378 3' -58.6 NC_003084.1 + 74372 0.66 0.702309
Target:  5'- gCCAGCUCCGuGUaCAGCUgCaGCGAc -3'
miRNA:   3'- -GGUCGAGGUcUAgGUCGAgGcCGCUu -5'
11378 3' -58.6 NC_003084.1 + 7447 0.66 0.681838
Target:  5'- uCgGGCUuuGGAUCgGGCUCgGGCu-- -3'
miRNA:   3'- -GgUCGAggUCUAGgUCGAGgCCGcuu -5'
11378 3' -58.6 NC_003084.1 + 1378 0.66 0.681838
Target:  5'- aCCGGUcCCAGGUUCGGUguaCGuGCGAAa -3'
miRNA:   3'- -GGUCGaGGUCUAGGUCGag-GC-CGCUU- -5'
11378 3' -58.6 NC_003084.1 + 7524 0.67 0.650838
Target:  5'- uUCAGCUgCAGAcUCgGGCUCUGGUu-- -3'
miRNA:   3'- -GGUCGAgGUCU-AGgUCGAGGCCGcuu -5'
11378 3' -58.6 NC_003084.1 + 87085 0.67 0.650838
Target:  5'- uUCAGuCUCCAGGUCCAGgUUCaGCu-- -3'
miRNA:   3'- -GGUC-GAGGUCUAGGUCgAGGcCGcuu -5'
11378 3' -58.6 NC_003084.1 + 65586 0.67 0.640463
Target:  5'- cCCAGCcccaacuugUCCAGAUCCAaC-CUGGUGGGa -3'
miRNA:   3'- -GGUCG---------AGGUCUAGGUcGaGGCCGCUU- -5'
11378 3' -58.6 NC_003084.1 + 52004 0.68 0.588646
Target:  5'- -aAGUUUCgAGcUCCAGC-CCGGCGAAg -3'
miRNA:   3'- ggUCGAGG-UCuAGGUCGaGGCCGCUU- -5'
11378 3' -58.6 NC_003084.1 + 17476 0.68 0.568094
Target:  5'- -gAGCgCCGGGUCCAGCUCCuccauuauGGUGu- -3'
miRNA:   3'- ggUCGaGGUCUAGGUCGAGG--------CCGCuu -5'
11378 3' -58.6 NC_003084.1 + 89823 0.68 0.567071
Target:  5'- --cGCUCCAGGUCauCGagcucgucuuggcGCUCCGGUGAAc -3'
miRNA:   3'- gguCGAGGUCUAG--GU-------------CGAGGCCGCUU- -5'
11378 3' -58.6 NC_003084.1 + 55463 0.68 0.547727
Target:  5'- gCAGCUCCgAGucAUCCuggGGCUgCGGCGGc -3'
miRNA:   3'- gGUCGAGG-UC--UAGG---UCGAgGCCGCUu -5'
11378 3' -58.6 NC_003084.1 + 54528 0.71 0.396576
Target:  5'- cCCAGCUCCAaGUCCAGauaCGGCa-- -3'
miRNA:   3'- -GGUCGAGGUcUAGGUCgagGCCGcuu -5'
11378 3' -58.6 NC_003084.1 + 59020 1.08 0.001202
Target:  5'- cCCAGCUCCAGAUCCAGCUCCGGCGAAg -3'
miRNA:   3'- -GGUCGAGGUCUAGGUCGAGGCCGCUU- -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.