miRNA display CGI


Results 1 - 20 of 21 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
2048 5' -59.9 NC_001347.2 + 165572 0.66 0.856254
Target:  5'- gGCCgaaCCGCGACUCcaggcgGCGCGgcaCUUCg -3'
miRNA:   3'- aCGGag-GGCGCUGGG------CGUGCa--GAAGa -5'
2048 5' -59.9 NC_001347.2 + 39804 0.66 0.848814
Target:  5'- cGCCUCCCG-GGCgCGCACccaUCUa-- -3'
miRNA:   3'- aCGGAGGGCgCUGgGCGUGc--AGAaga -5'
2048 5' -59.9 NC_001347.2 + 127225 0.66 0.833412
Target:  5'- aGCCUCUuuccgCGUGACCUGCucCGUCa--- -3'
miRNA:   3'- aCGGAGG-----GCGCUGGGCGu-GCAGaaga -5'
2048 5' -59.9 NC_001347.2 + 124713 0.66 0.825461
Target:  5'- cGUCgugUCCGUGAUCaCGUACGUUUUCc -3'
miRNA:   3'- aCGGa--GGGCGCUGG-GCGUGCAGAAGa -5'
2048 5' -59.9 NC_001347.2 + 86325 0.66 0.817353
Target:  5'- aGCCag-CGCGGCCaCGCGCGUCa--- -3'
miRNA:   3'- aCGGaggGCGCUGG-GCGUGCAGaaga -5'
2048 5' -59.9 NC_001347.2 + 28268 0.66 0.817353
Target:  5'- cGCCgaCCCGgGACCCugauGCugGUCa--- -3'
miRNA:   3'- aCGGa-GGGCgCUGGG----CGugCAGaaga -5'
2048 5' -59.9 NC_001347.2 + 39044 0.67 0.809093
Target:  5'- cGCgUCCCGCGGCgacaguugaCGCAgGUCcgUCg -3'
miRNA:   3'- aCGgAGGGCGCUGg--------GCGUgCAGa-AGa -5'
2048 5' -59.9 NC_001347.2 + 630 0.67 0.791287
Target:  5'- gUGCgCUCCagugguaCGCGccugCCGCGCGUCUUCc -3'
miRNA:   3'- -ACG-GAGG-------GCGCug--GGCGUGCAGAAGa -5'
2048 5' -59.9 NC_001347.2 + 176731 0.68 0.756767
Target:  5'- gGCCUaCCaucugaagcUGCGACCCGCcACGUUcggUCUg -3'
miRNA:   3'- aCGGA-GG---------GCGCUGGGCG-UGCAGa--AGA- -5'
2048 5' -59.9 NC_001347.2 + 127155 0.68 0.718865
Target:  5'- cGUCUaCCGCGuacaccuGCCCaaugaccaGCACGUCUUCUg -3'
miRNA:   3'- aCGGAgGGCGC-------UGGG--------CGUGCAGAAGA- -5'
2048 5' -59.9 NC_001347.2 + 208365 0.68 0.710376
Target:  5'- gGCCaccgaUCCCGCGGCCaGCAaccCGaUCUUCg -3'
miRNA:   3'- aCGG-----AGGGCGCUGGgCGU---GC-AGAAGa -5'
2048 5' -59.9 NC_001347.2 + 126577 0.68 0.710376
Target:  5'- cGCgUUCCGCGaACgUGCGCGUCUg-- -3'
miRNA:   3'- aCGgAGGGCGC-UGgGCGUGCAGAaga -5'
2048 5' -59.9 NC_001347.2 + 114108 0.69 0.700888
Target:  5'- cGCCgUCCCGCgGGUCCGCACGggcaaaUUCUc -3'
miRNA:   3'- aCGG-AGGGCG-CUGGGCGUGCag----AAGA- -5'
2048 5' -59.9 NC_001347.2 + 170100 0.69 0.691348
Target:  5'- cGUCUCCCGaCGGCaCGC-CGUCUgugCUg -3'
miRNA:   3'- aCGGAGGGC-GCUGgGCGuGCAGAa--GA- -5'
2048 5' -59.9 NC_001347.2 + 92021 0.69 0.681763
Target:  5'- cGUCUCCCaguGUGACCUGCGCcgcgGUCUUa- -3'
miRNA:   3'- aCGGAGGG---CGCUGGGCGUG----CAGAAga -5'
2048 5' -59.9 NC_001347.2 + 18004 0.69 0.662491
Target:  5'- cGCCaUCCCGCaGAUuuaCGCACGUUcUCUg -3'
miRNA:   3'- aCGG-AGGGCG-CUGg--GCGUGCAGaAGA- -5'
2048 5' -59.9 NC_001347.2 + 23258 0.7 0.642162
Target:  5'- gGCCUgggcgcccccaccCCCGCGACCCucGCGCGgagUCa -3'
miRNA:   3'- aCGGA-------------GGGCGCUGGG--CGUGCagaAGa -5'
2048 5' -59.9 NC_001347.2 + 205050 0.7 0.632467
Target:  5'- cGUC-CCCGCGACUCacaucuaGCuCGUCUUCUg -3'
miRNA:   3'- aCGGaGGGCGCUGGG-------CGuGCAGAAGA- -5'
2048 5' -59.9 NC_001347.2 + 126442 0.72 0.5281
Target:  5'- cGCCUCCauggGCGAgUUCGCGCGUCUgCUa -3'
miRNA:   3'- aCGGAGGg---CGCU-GGGCGUGCAGAaGA- -5'
2048 5' -59.9 NC_001347.2 + 5614 0.72 0.5281
Target:  5'- gGUaggCCCGCGagaagGCCCGCACgGUCUUCc -3'
miRNA:   3'- aCGga-GGGCGC-----UGGGCGUG-CAGAAGa -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.