miRNA display CGI


Results 1 - 20 of 35 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
10293 3' -50.2 NC_002687.1 + 2643 0.66 0.999833
Target:  5'- gGGAGguGCGUgGAGUggugucAGUAGGUUGa -3'
miRNA:   3'- gCCUCguUGCGgUUCG------UCAUUUAGCa -5'
10293 3' -50.2 NC_002687.1 + 11359 0.69 0.996795
Target:  5'- uCGGAGCAGCagcagcagaaGCCGcgguAGCAGUAGccgCGg -3'
miRNA:   3'- -GCCUCGUUG----------CGGU----UCGUCAUUua-GCa -5'
10293 3' -50.2 NC_002687.1 + 13301 0.68 0.998634
Target:  5'- -aGAGCGACGC--AGCAGgu-AUCGUa -3'
miRNA:   3'- gcCUCGUUGCGguUCGUCauuUAGCA- -5'
10293 3' -50.2 NC_002687.1 + 18732 1.09 0.020038
Target:  5'- aCGGAGCAACGCCAAGCAGUAAAUCGUa -3'
miRNA:   3'- -GCCUCGUUGCGGUUCGUCAUUUAGCA- -5'
10293 3' -50.2 NC_002687.1 + 18835 0.66 0.999833
Target:  5'- aGGAGCAcuaGCaCGAGCGGcuucauGUCGUc -3'
miRNA:   3'- gCCUCGUug-CG-GUUCGUCauu---UAGCA- -5'
10293 3' -50.2 NC_002687.1 + 22169 0.66 0.999869
Target:  5'- gGGAGCAu--UCAGGCAGUGuccGUCGc -3'
miRNA:   3'- gCCUCGUugcGGUUCGUCAUu--UAGCa -5'
10293 3' -50.2 NC_002687.1 + 24066 0.68 0.998364
Target:  5'- cCGGAGgGGCGUCG-GCGGUGAGggGg -3'
miRNA:   3'- -GCCUCgUUGCGGUuCGUCAUUUagCa -5'
10293 3' -50.2 NC_002687.1 + 35818 0.67 0.999487
Target:  5'- aGGGGCGGgcaucUGCCGAuGCGGUGAuacguUCGa -3'
miRNA:   3'- gCCUCGUU-----GCGGUU-CGUCAUUu----AGCa -5'
10293 3' -50.2 NC_002687.1 + 47640 0.68 0.998865
Target:  5'- gGGAGCGuuUGCUcAGCAGUAGGUUu- -3'
miRNA:   3'- gCCUCGUu-GCGGuUCGUCAUUUAGca -5'
10293 3' -50.2 NC_002687.1 + 48070 0.66 0.999789
Target:  5'- uCGGAGCAgcauguACGUgcAGCAGUu-AUCGg -3'
miRNA:   3'- -GCCUCGU------UGCGguUCGUCAuuUAGCa -5'
10293 3' -50.2 NC_002687.1 + 60621 0.66 0.999789
Target:  5'- aCGGcaaAGCGA-GCCAAGCAGaacgAAGUgGUg -3'
miRNA:   3'- -GCC---UCGUUgCGGUUCGUCa---UUUAgCA- -5'
10293 3' -50.2 NC_002687.1 + 71767 0.66 0.999833
Target:  5'- aCGGAGUacuuGACGCCGuauGCGGUGGc---- -3'
miRNA:   3'- -GCCUCG----UUGCGGUu--CGUCAUUuagca -5'
10293 3' -50.2 NC_002687.1 + 73072 0.66 0.999734
Target:  5'- aCGGA-CGAugcUGCCGAGCGG-GGGUCGUc -3'
miRNA:   3'- -GCCUcGUU---GCGGUUCGUCaUUUAGCA- -5'
10293 3' -50.2 NC_002687.1 + 80811 0.7 0.993631
Target:  5'- cCGGAGCAACGCCucugucAaagaacgcacgcacgAGCAGUAGGUa-- -3'
miRNA:   3'- -GCCUCGUUGCGG------U---------------UCGUCAUUUAgca -5'
10293 3' -50.2 NC_002687.1 + 87046 0.68 0.998865
Target:  5'- uCGGAGgGAuuccUGCCGAGaucuGUAGAUCGg -3'
miRNA:   3'- -GCCUCgUU----GCGGUUCgu--CAUUUAGCa -5'
10293 3' -50.2 NC_002687.1 + 87717 0.71 0.988625
Target:  5'- uGGGGuCAACGCCGGGCGuGUGGcgCu- -3'
miRNA:   3'- gCCUC-GUUGCGGUUCGU-CAUUuaGca -5'
10293 3' -50.2 NC_002687.1 + 119532 0.66 0.999768
Target:  5'- aGGAGC-GCGCCAGGUuugaaaaccuGGUCGg -3'
miRNA:   3'- gCCUCGuUGCGGUUCGucau------UUAGCa -5'
10293 3' -50.2 NC_002687.1 + 121297 0.68 0.998364
Target:  5'- aGGAagacGCAuuGCGCCAAGgAGUucauAGUCGa -3'
miRNA:   3'- gCCU----CGU--UGCGGUUCgUCAu---UUAGCa -5'
10293 3' -50.2 NC_002687.1 + 126137 0.68 0.997689
Target:  5'- aGGAGCcACGCCAAGCuucuuGUucacUUGUg -3'
miRNA:   3'- gCCUCGuUGCGGUUCGu----CAuuu-AGCA- -5'
10293 3' -50.2 NC_002687.1 + 161474 0.67 0.999369
Target:  5'- uGGAuCAugGCCAcGCGGccgGGAUCGa -3'
miRNA:   3'- gCCUcGUugCGGUuCGUCa--UUUAGCa -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.