miRNA display CGI


Results 1 - 20 of 27 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
1961 5' -60.2 NC_001347.2 + 112177 0.66 0.83895
Target:  5'- -gCCGuGGGUGuuucuccuCCGCcacucgUCAGCuCGCCGg -3'
miRNA:   3'- caGGCuCCUACu-------GGCG------AGUCG-GCGGC- -5'
1961 5' -60.2 NC_001347.2 + 81730 0.66 0.836623
Target:  5'- -gCCGAGcccacGAUGucgggcagGCCGCaccacgagagcaccUCAGCCGCCGc -3'
miRNA:   3'- caGGCUC-----CUAC--------UGGCG--------------AGUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 196120 0.66 0.835845
Target:  5'- -cCCGAGGAgcgcgaacucaucGGCCGCU--GCCuGCCGg -3'
miRNA:   3'- caGGCUCCUa------------CUGGCGAguCGG-CGGC- -5'
1961 5' -60.2 NC_001347.2 + 152429 0.66 0.831137
Target:  5'- --aCGAGGAggaggGGCCGC--AGCCGuuGg -3'
miRNA:   3'- cagGCUCCUa----CUGGCGagUCGGCggC- -5'
1961 5' -60.2 NC_001347.2 + 208787 0.66 0.815033
Target:  5'- gGUCuCGGuGAUGAgCCgaaacgagagGCUCAGCCGCUGc -3'
miRNA:   3'- -CAG-GCUcCUACU-GG----------CGAGUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 193089 0.66 0.811739
Target:  5'- uGUCCGGccgucgcaagGGCUGCUCGGCgGCCa -3'
miRNA:   3'- -CAGGCUccua------CUGGCGAGUCGgCGGc -5'
1961 5' -60.2 NC_001347.2 + 35688 0.66 0.806754
Target:  5'- -gCCGGGGAaGACgCGCUCcGGCC-CUGg -3'
miRNA:   3'- caGGCUCCUaCUG-GCGAG-UCGGcGGC- -5'
1961 5' -60.2 NC_001347.2 + 73712 0.67 0.798335
Target:  5'- -gCCGGGGu---CCGCgggCAccGCCGCCGg -3'
miRNA:   3'- caGGCUCCuacuGGCGa--GU--CGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 155211 0.67 0.772302
Target:  5'- aGUCCGAgugccacuGGGUGuACUcgguGCUcCAGCCGCUGu -3'
miRNA:   3'- -CAGGCU--------CCUAC-UGG----CGA-GUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 112475 0.68 0.745265
Target:  5'- cGUCCGAGGAcGACgaCGac--GCCGCCGc -3'
miRNA:   3'- -CAGGCUCCUaCUG--GCgaguCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 85628 0.68 0.741595
Target:  5'- -aCCGGGuGUGACUGCaacagcgaggccaCGGCCGCCGc -3'
miRNA:   3'- caGGCUCcUACUGGCGa------------GUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 195667 0.69 0.689011
Target:  5'- -cCCGAGGAUcuggcGGCCGC-CGGCgGUCa -3'
miRNA:   3'- caGGCUCCUA-----CUGGCGaGUCGgCGGc -5'
1961 5' -60.2 NC_001347.2 + 40591 0.69 0.689011
Target:  5'- -gUCGGGGGUuuucGAgCGUUCuGGCCGCCGg -3'
miRNA:   3'- caGGCUCCUA----CUgGCGAG-UCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 177611 0.69 0.679443
Target:  5'- gGUCCGuGGAcuuggUGGCCGCgcucUUGGCCgaGCCGg -3'
miRNA:   3'- -CAGGCuCCU-----ACUGGCG----AGUCGG--CGGC- -5'
1961 5' -60.2 NC_001347.2 + 209755 0.69 0.668879
Target:  5'- -gCCGGcGGuAUGACgGCcaguucuugcgcuUCGGCCGCCGg -3'
miRNA:   3'- caGGCU-CC-UACUGgCG-------------AGUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 172664 0.69 0.649595
Target:  5'- uGUCCG-GGAUGgaucgcaagacgcGCCuCUCggAGCCGCCGa -3'
miRNA:   3'- -CAGGCuCCUAC-------------UGGcGAG--UCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 63104 0.7 0.62156
Target:  5'- -gCCGcc-GUGGCCGCcgCGGCCGCCGc -3'
miRNA:   3'- caGGCuccUACUGGCGa-GUCGGCGGC- -5'
1961 5' -60.2 NC_001347.2 + 22728 0.7 0.611899
Target:  5'- cGUCCuGGuGGUGACCGCcgcuUCGGCCGUg- -3'
miRNA:   3'- -CAGGcUC-CUACUGGCG----AGUCGGCGgc -5'
1961 5' -60.2 NC_001347.2 + 192221 0.7 0.601287
Target:  5'- cGUCCGAGacGGUGuauauaaACCGCgUCGGCCucGCCGg -3'
miRNA:   3'- -CAGGCUC--CUAC-------UGGCG-AGUCGG--CGGC- -5'
1961 5' -60.2 NC_001347.2 + 36526 0.7 0.592623
Target:  5'- cGUCCGGGcucGGUGACCuCUCGGUCGgCGu -3'
miRNA:   3'- -CAGGCUC---CUACUGGcGAGUCGGCgGC- -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.