miRNA display CGI


Results 1 - 20 of 22 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
7202 3' -59.2 NC_001900.1 + 36210 0.66 0.474675
Target:  5'- cCUGAuccgucacGUcGAAGGaCAGACCGCCGAu -3'
miRNA:   3'- uGACUc-------CGaCUUCCgGUCUGGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 27570 0.66 0.474675
Target:  5'- uCUG-GGCUGcgauGGCCGcGAaCGCCGAg -3'
miRNA:   3'- uGACuCCGACuu--CCGGU-CUgGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 41075 0.66 0.474675
Target:  5'- --cGAGacGUUGcGGGCCAGGCCGgUGAc -3'
miRNA:   3'- ugaCUC--CGACuUCCGGUCUGGCgGCU- -5'
7202 3' -59.2 NC_001900.1 + 42520 0.66 0.464704
Target:  5'- gGCU--GGCUGuAGGCCGGuuggauGCCGuuGAg -3'
miRNA:   3'- -UGAcuCCGACuUCCGGUC------UGGCggCU- -5'
7202 3' -59.2 NC_001900.1 + 28457 0.66 0.454843
Target:  5'- uGCUGGGGUUGAAgcucGGCCccauccacucccAGAuguCCGUCGGa -3'
miRNA:   3'- -UGACUCCGACUU----CCGG------------UCU---GGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 12721 0.66 0.444129
Target:  5'- -gUGAGGCcgcGAgcccguuccguucGGGCCGGAUCGUCGc -3'
miRNA:   3'- ugACUCCGa--CU-------------UCCGGUCUGGCGGCu -5'
7202 3' -59.2 NC_001900.1 + 17024 0.66 0.442196
Target:  5'- aGCcGAGaccaugaugcccgcGCUGGAagcGGCCaAGACCGCCGu -3'
miRNA:   3'- -UGaCUC--------------CGACUU---CCGG-UCUGGCGGCu -5'
7202 3' -59.2 NC_001900.1 + 20865 0.66 0.435469
Target:  5'- --cGAGGCcaacGAcaucgcacaAGGCCAGcUCGCCGAg -3'
miRNA:   3'- ugaCUCCGa---CU---------UCCGGUCuGGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 25162 0.66 0.435469
Target:  5'- cGCaGAGGCUc-GGGCCGGGuacgaggcgagcCUGCCGAc -3'
miRNA:   3'- -UGaCUCCGAcuUCCGGUCU------------GGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 7662 0.66 0.425962
Target:  5'- --gGGGGUUGggGGCgCAGGgCGUCa- -3'
miRNA:   3'- ugaCUCCGACuuCCG-GUCUgGCGGcu -5'
7202 3' -59.2 NC_001900.1 + 47697 0.67 0.41658
Target:  5'- -gUGAGuGCUGGucgcGGGCgGcGACCGCCa- -3'
miRNA:   3'- ugACUC-CGACU----UCCGgU-CUGGCGGcu -5'
7202 3' -59.2 NC_001900.1 + 23601 0.67 0.41658
Target:  5'- cGCUGGcGGCUc-AGGCCGGugCGaCGAc -3'
miRNA:   3'- -UGACU-CCGAcuUCCGGUCugGCgGCU- -5'
7202 3' -59.2 NC_001900.1 + 21957 0.67 0.407325
Target:  5'- -gUGAGGCUGGgcguGGGCCAcGuuGCCc- -3'
miRNA:   3'- ugACUCCGACU----UCCGGUcUggCGGcu -5'
7202 3' -59.2 NC_001900.1 + 33045 0.68 0.354593
Target:  5'- gACUGGuGCUGcuGGCCAccGCCGCCGc -3'
miRNA:   3'- -UGACUcCGACuuCCGGUc-UGGCGGCu -5'
7202 3' -59.2 NC_001900.1 + 6447 0.68 0.346285
Target:  5'- cGCUGAGGCUG-AGGUCGaGCgCGUCa- -3'
miRNA:   3'- -UGACUCCGACuUCCGGUcUG-GCGGcu -5'
7202 3' -59.2 NC_001900.1 + 10177 0.69 0.314464
Target:  5'- cGCUGAGGCcaucAGGGCCgcagAGAgCCGCCuGAu -3'
miRNA:   3'- -UGACUCCGac--UUCCGG----UCU-GGCGG-CU- -5'
7202 3' -59.2 NC_001900.1 + 34861 0.7 0.270967
Target:  5'- --aGAGGCaccgGcccaGAGGCCGuGCCGCCGAa -3'
miRNA:   3'- ugaCUCCGa---C----UUCCGGUcUGGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 235 0.7 0.256928
Target:  5'- --aGGGGCUGAAGGCCccuccuaAGAgCCGCUu- -3'
miRNA:   3'- ugaCUCCGACUUCCGG-------UCU-GGCGGcu -5'
7202 3' -59.2 NC_001900.1 + 38520 0.71 0.232442
Target:  5'- gGCgUGGGGUUGggGgaGCCugGGACCGUCGGg -3'
miRNA:   3'- -UG-ACUCCGACuuC--CGG--UCUGGCGGCU- -5'
7202 3' -59.2 NC_001900.1 + 5961 0.72 0.183391
Target:  5'- gGCUGGcuGCUGAAccGGCCAGGCCGCa-- -3'
miRNA:   3'- -UGACUc-CGACUU--CCGGUCUGGCGgcu -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.