miRNA display CGI


Results 1 - 20 of 25 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
29144 3' -54.5 NC_006146.1 + 32564 0.66 0.94142
Target:  5'- uUGCAGGUgggCUGCauaUUCCcGcCAGCUu -3'
miRNA:   3'- gACGUCCGa--GACGaa-AAGGuC-GUCGA- -5'
29144 3' -54.5 NC_006146.1 + 13551 0.66 0.938522
Target:  5'- gCUGCAGGCgccgggcgccgggCUGCgcaagcaggCCGGgGGCUc -3'
miRNA:   3'- -GACGUCCGa------------GACGaaaa-----GGUCgUCGA- -5'
29144 3' -54.5 NC_006146.1 + 79048 0.66 0.93654
Target:  5'- gUGCAGGCacCUGUcuuUUUUCCAcCGGCc -3'
miRNA:   3'- gACGUCCGa-GACG---AAAAGGUcGUCGa -5'
29144 3' -54.5 NC_006146.1 + 158612 0.66 0.93654
Target:  5'- -aGCAGGUUCUGgUUcagcugCCAGUAGgUg -3'
miRNA:   3'- gaCGUCCGAGACgAAaa----GGUCGUCgA- -5'
29144 3' -54.5 NC_006146.1 + 105650 0.66 0.93654
Target:  5'- -aGCAGGCUgagCUGUUUUgCCauuuuauucaGGCGGCUc -3'
miRNA:   3'- gaCGUCCGA---GACGAAAaGG----------UCGUCGA- -5'
29144 3' -54.5 NC_006146.1 + 156782 0.66 0.931408
Target:  5'- gCUGUAGGC-C-GCcg--CCAGCAGCc -3'
miRNA:   3'- -GACGUCCGaGaCGaaaaGGUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 93940 0.66 0.928208
Target:  5'- -gGCgGGGCUCcGCUcUccgucccaggcgaccUCCAGCGGCa -3'
miRNA:   3'- gaCG-UCCGAGaCGAaA---------------AGGUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 46575 0.66 0.926024
Target:  5'- -gGguGGCg-UGCg---CCAGCAGCg -3'
miRNA:   3'- gaCguCCGagACGaaaaGGUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 150178 0.66 0.920386
Target:  5'- -cGCGGGUccUCgcagGCcg--CCAGCAGCUu -3'
miRNA:   3'- gaCGUCCG--AGa---CGaaaaGGUCGUCGA- -5'
29144 3' -54.5 NC_006146.1 + 128214 0.66 0.920386
Target:  5'- -gGgGGGCUCUGCcag-CCucaGGCAGCc -3'
miRNA:   3'- gaCgUCCGAGACGaaaaGG---UCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 21436 0.66 0.914497
Target:  5'- -gGgGGaGCUCUGCUUcUCCAcGgAGCUg -3'
miRNA:   3'- gaCgUC-CGAGACGAAaAGGU-CgUCGA- -5'
29144 3' -54.5 NC_006146.1 + 92858 0.68 0.873982
Target:  5'- uUGguGGCacggUCUGacUUUCCAGUGGCUg -3'
miRNA:   3'- gACguCCG----AGACgaAAAGGUCGUCGA- -5'
29144 3' -54.5 NC_006146.1 + 117827 0.68 0.872484
Target:  5'- uCUGCAGGCUCUccacggccaccgcGUUgcUCCccaacuugaugacAGCGGCUg -3'
miRNA:   3'- -GACGUCCGAGA-------------CGAaaAGG-------------UCGUCGA- -5'
29144 3' -54.5 NC_006146.1 + 10508 0.68 0.866402
Target:  5'- -cGCAGGCUCUGgUUUgcgagacUgGGCGGCc -3'
miRNA:   3'- gaCGUCCGAGACgAAAa------GgUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 62633 0.68 0.866402
Target:  5'- --aCAGGCUggGC-UUUCCGGCGGCc -3'
miRNA:   3'- gacGUCCGAgaCGaAAAGGUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 102039 0.68 0.850578
Target:  5'- -gGcCAGGCUgucgccagcCUGCUUgUCCAGCAGg- -3'
miRNA:   3'- gaC-GUCCGA---------GACGAAaAGGUCGUCga -5'
29144 3' -54.5 NC_006146.1 + 4810 0.69 0.816481
Target:  5'- aCUGuCAGGCUCcuccaGCaca-CCAGCAGCa -3'
miRNA:   3'- -GAC-GUCCGAGa----CGaaaaGGUCGUCGa -5'
29144 3' -54.5 NC_006146.1 + 20317 0.69 0.789021
Target:  5'- cCUGCAGGCgggUGCUggacgauggCCAGCAGa- -3'
miRNA:   3'- -GACGUCCGag-ACGAaaa------GGUCGUCga -5'
29144 3' -54.5 NC_006146.1 + 104552 0.71 0.689285
Target:  5'- cCUGCaccagGGGCUCgaugcUGCUgucaUUCCAGUGGCUa -3'
miRNA:   3'- -GACG-----UCCGAG-----ACGAa---AAGGUCGUCGA- -5'
29144 3' -54.5 NC_006146.1 + 115593 0.72 0.668417
Target:  5'- cCUGuCAGGCUucgccCUGCacuUUUUCCGGCuGCUg -3'
miRNA:   3'- -GAC-GUCCGA-----GACG---AAAAGGUCGuCGA- -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.