miRNA display CGI


Results 1 - 20 of 24 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
18579 3' -58.3 NC_004682.1 + 30562 0.66 0.581043
Target:  5'- uGAUCUCCcGGUCgggccacgCGGCCCgugCGGu -3'
miRNA:   3'- gCUAGAGGuCCAGg-------GUCGGGaa-GCCc -5'
18579 3' -58.3 NC_004682.1 + 36600 0.66 0.559847
Target:  5'- gGAcCUCCGGGUCcagcuCCAGCCCcUUGa- -3'
miRNA:   3'- gCUaGAGGUCCAG-----GGUCGGGaAGCcc -5'
18579 3' -58.3 NC_004682.1 + 42710 0.66 0.538872
Target:  5'- gCGAa--CCGGGUCgCGGCCUccagcgUCGGGa -3'
miRNA:   3'- -GCUagaGGUCCAGgGUCGGGa-----AGCCC- -5'
18579 3' -58.3 NC_004682.1 + 27039 0.66 0.538872
Target:  5'- uGGUCaUCUGGGUCcaCCAGUCCUUCa-- -3'
miRNA:   3'- gCUAG-AGGUCCAG--GGUCGGGAAGccc -5'
18579 3' -58.3 NC_004682.1 + 43034 0.67 0.518171
Target:  5'- gGAUgUCCuGGuacgcgUCCCAGUCCUucUCGGc -3'
miRNA:   3'- gCUAgAGGuCC------AGGGUCGGGA--AGCCc -5'
18579 3' -58.3 NC_004682.1 + 29676 0.67 0.518171
Target:  5'- gGAUCUCCuGaGccUCCCGGUCCUUCu-- -3'
miRNA:   3'- gCUAGAGGuC-C--AGGGUCGGGAAGccc -5'
18579 3' -58.3 NC_004682.1 + 44577 0.67 0.497794
Target:  5'- ---cCUCCAGG-CCCagAGCCCggaggUCGGc -3'
miRNA:   3'- gcuaGAGGUCCaGGG--UCGGGa----AGCCc -5'
18579 3' -58.3 NC_004682.1 + 41299 0.67 0.497794
Target:  5'- cCGGUCUCgGGGUcgacgCCCAGCUCcUCGc- -3'
miRNA:   3'- -GCUAGAGgUCCA-----GGGUCGGGaAGCcc -5'
18579 3' -58.3 NC_004682.1 + 25901 0.67 0.497794
Target:  5'- uCGGUCUCCuGGGUgaCCCAGCCagacgcaCGGc -3'
miRNA:   3'- -GCUAGAGG-UCCA--GGGUCGGgaa----GCCc -5'
18579 3' -58.3 NC_004682.1 + 38208 0.67 0.48774
Target:  5'- cCGGgggCUCUAGGccCCCGGCCCgUUCucugucaaGGGa -3'
miRNA:   3'- -GCUa--GAGGUCCa-GGGUCGGG-AAG--------CCC- -5'
18579 3' -58.3 NC_004682.1 + 48696 0.67 0.48774
Target:  5'- gGAcCggUAGGUCCCuGCucgCCUUCGGGg -3'
miRNA:   3'- gCUaGagGUCCAGGGuCG---GGAAGCCC- -5'
18579 3' -58.3 NC_004682.1 + 30809 0.67 0.477784
Target:  5'- cCGAUaccgUCAGGUUgCCGGCCCcgaugcUCGGGa -3'
miRNA:   3'- -GCUAga--GGUCCAG-GGUCGGGa-----AGCCC- -5'
18579 3' -58.3 NC_004682.1 + 50464 0.67 0.476793
Target:  5'- aGcgCUCCGGGcgcUCCCggaggggAGCCgCUUgGGGg -3'
miRNA:   3'- gCuaGAGGUCC---AGGG-------UCGG-GAAgCCC- -5'
18579 3' -58.3 NC_004682.1 + 48576 0.67 0.467928
Target:  5'- uGGUCUCCcuuGUCgCCcuucGGCCCUUgCGGGc -3'
miRNA:   3'- gCUAGAGGuc-CAG-GG----UCGGGAA-GCCC- -5'
18579 3' -58.3 NC_004682.1 + 44118 0.67 0.467928
Target:  5'- gGAUCUCgAacGGUgccuucUCCAGCCCUUCGa- -3'
miRNA:   3'- gCUAGAGgU--CCA------GGGUCGGGAAGCcc -5'
18579 3' -58.3 NC_004682.1 + 25495 0.67 0.467928
Target:  5'- gGggCUguagaUCAGGUCCCAGUCCagcgUCGGc -3'
miRNA:   3'- gCuaGA-----GGUCCAGGGUCGGGa---AGCCc -5'
18579 3' -58.3 NC_004682.1 + 20187 0.68 0.458178
Target:  5'- gGAaCUCCGcGUCCUGGCCgCgcugUCGGGc -3'
miRNA:   3'- gCUaGAGGUcCAGGGUCGG-Ga---AGCCC- -5'
18579 3' -58.3 NC_004682.1 + 37752 0.68 0.439011
Target:  5'- uCGGUCUCCgacAGGU---AGCCC-UCGGGg -3'
miRNA:   3'- -GCUAGAGG---UCCAgggUCGGGaAGCCC- -5'
18579 3' -58.3 NC_004682.1 + 26690 0.68 0.411141
Target:  5'- ---cCUCCAGGaucgCCUuGCCC-UCGGGa -3'
miRNA:   3'- gcuaGAGGUCCa---GGGuCGGGaAGCCC- -5'
18579 3' -58.3 NC_004682.1 + 48442 0.7 0.334476
Target:  5'- uCGGaC-CCugcGGUCCCgucucacccuguGGCCCUUCGGGa -3'
miRNA:   3'- -GCUaGaGGu--CCAGGG------------UCGGGAAGCCC- -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.