miRNA display CGI


Results 1 - 16 of 16 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
5608 3' -54 NC_001806.1 + 103916 0.66 0.963844
Target:  5'- uUCUgCGGGAcgagCCgggucacgcgGCUGACGcgGAGCGu -3'
miRNA:   3'- -AGA-GCCCUa---GGa---------CGACUGCa-UUCGCu -5'
5608 3' -54 NC_001806.1 + 77659 0.66 0.963844
Target:  5'- gCUCGGcg-CgCUGCUGAUGUGucccgaGGCGGc -3'
miRNA:   3'- aGAGCCcuaG-GACGACUGCAU------UCGCU- -5'
5608 3' -54 NC_001806.1 + 116274 0.66 0.960355
Target:  5'- -gUUGGGGUUgUUGCUGGCGUAccgaaGGCGc -3'
miRNA:   3'- agAGCCCUAG-GACGACUGCAU-----UCGCu -5'
5608 3' -54 NC_001806.1 + 10765 0.66 0.95664
Target:  5'- gUCUCGGGcaCCUGCuUGGgGggcaucAGCGAg -3'
miRNA:   3'- -AGAGCCCuaGGACG-ACUgCau----UCGCU- -5'
5608 3' -54 NC_001806.1 + 72516 0.66 0.952694
Target:  5'- cCUgGGGGagcCCUGCgucGGCGUGGGCc- -3'
miRNA:   3'- aGAgCCCUa--GGACGa--CUGCAUUCGcu -5'
5608 3' -54 NC_001806.1 + 37356 0.66 0.948514
Target:  5'- --aUGGGGUCCUGggGGCGc-AGCGGc -3'
miRNA:   3'- agaGCCCUAGGACgaCUGCauUCGCU- -5'
5608 3' -54 NC_001806.1 + 77245 0.67 0.939437
Target:  5'- cCUgGGGggCCUGUUGGCGgaauucgacGCGGu -3'
miRNA:   3'- aGAgCCCuaGGACGACUGCauu------CGCU- -5'
5608 3' -54 NC_001806.1 + 23038 0.67 0.929391
Target:  5'- --gCGGGGaCCUGCgcguggccGGCGgcAGCGAg -3'
miRNA:   3'- agaGCCCUaGGACGa-------CUGCauUCGCU- -5'
5608 3' -54 NC_001806.1 + 94287 0.67 0.924001
Target:  5'- gCUCcuGGGcagCCUGgaGACGUucGCGAc -3'
miRNA:   3'- aGAG--CCCua-GGACgaCUGCAuuCGCU- -5'
5608 3' -54 NC_001806.1 + 75537 0.67 0.924001
Target:  5'- gUUCGGGggCCUGUUGcACGccgAAGgGAc -3'
miRNA:   3'- aGAGCCCuaGGACGAC-UGCa--UUCgCU- -5'
5608 3' -54 NC_001806.1 + 136158 0.68 0.912489
Target:  5'- aUCUCGGGAaacagCC-GCUGgACG--GGCGAa -3'
miRNA:   3'- -AGAGCCCUa----GGaCGAC-UGCauUCGCU- -5'
5608 3' -54 NC_001806.1 + 101063 0.68 0.886576
Target:  5'- gUCUCGaGGAcgcgcUCCaGCUGcACGcAGGCGAu -3'
miRNA:   3'- -AGAGC-CCU-----AGGaCGAC-UGCaUUCGCU- -5'
5608 3' -54 NC_001806.1 + 10416 0.7 0.840931
Target:  5'- ---gGGGGUCCcGCUGGCGggagugccGGCGAg -3'
miRNA:   3'- agagCCCUAGGaCGACUGCau------UCGCU- -5'
5608 3' -54 NC_001806.1 + 22829 0.7 0.824092
Target:  5'- --gCGGGAUCCUGgaGGCGcuGGcCGAg -3'
miRNA:   3'- agaGCCCUAGGACgaCUGCauUC-GCU- -5'
5608 3' -54 NC_001806.1 + 96437 0.8 0.294867
Target:  5'- gCUgGGGGUCCUGgUGGCGUcGGCGGc -3'
miRNA:   3'- aGAgCCCUAGGACgACUGCAuUCGCU- -5'
5608 3' -54 NC_001806.1 + 110596 1.09 0.004201
Target:  5'- aUCUCGGGAUCCUGCUGACGUAAGCGAc -3'
miRNA:   3'- -AGAGCCCUAGGACGACUGCAUUCGCU- -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.