miRNA display CGI


Results 1 - 20 of 28 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
7360 3' -57.1 NC_001900.1 + 40444 0.66 0.660263
Target:  5'- aGCCGAccagAGCCGUCC-AgUCGU--UGGa -3'
miRNA:   3'- cCGGCU----UCGGCAGGcUgAGCGcuACC- -5'
7360 3' -57.1 NC_001900.1 + 1586 0.66 0.659191
Target:  5'- gGGCCGGAucuccucGCUGUUCGAggucggcuuCUCGgcCGGUGGc -3'
miRNA:   3'- -CCGGCUU-------CGGCAGGCU---------GAGC--GCUACC- -5'
7360 3' -57.1 NC_001900.1 + 15061 0.66 0.650604
Target:  5'- cGGCCGAAcugaagaccaucgacCUGUCCGACcCGuCGAccUGGa -3'
miRNA:   3'- -CCGGCUUc--------------GGCAGGCUGaGC-GCU--ACC- -5'
7360 3' -57.1 NC_001900.1 + 27469 0.66 0.646307
Target:  5'- gGGCCGAgccgcacggccuugAGCCGgCCGuCg-GCGAUGu -3'
miRNA:   3'- -CCGGCU--------------UCGGCaGGCuGagCGCUACc -5'
7360 3' -57.1 NC_001900.1 + 24437 0.66 0.628027
Target:  5'- cGCCGAAGCCGcCUuGGCcccaCGCaGUGGc -3'
miRNA:   3'- cCGGCUUCGGCaGG-CUGa---GCGcUACC- -5'
7360 3' -57.1 NC_001900.1 + 22975 0.66 0.628027
Target:  5'- cGCCGAGaugacccccGCCcuuGUCCGGg-CGUGGUGGg -3'
miRNA:   3'- cCGGCUU---------CGG---CAGGCUgaGCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 37263 0.66 0.617277
Target:  5'- cGCCGAcagGGCCGUCguacaCGGCcCGCaGcgGGg -3'
miRNA:   3'- cCGGCU---UCGGCAG-----GCUGaGCG-CuaCC- -5'
7360 3' -57.1 NC_001900.1 + 31663 0.66 0.617277
Target:  5'- -aCCGAAG--GUCCGcCUCGCGGUGu -3'
miRNA:   3'- ccGGCUUCggCAGGCuGAGCGCUACc -5'
7360 3' -57.1 NC_001900.1 + 40324 0.66 0.606538
Target:  5'- cGGCCGugguuGGCCGcgUCGAg-UGCGAUGa -3'
miRNA:   3'- -CCGGCu----UCGGCa-GGCUgaGCGCUACc -5'
7360 3' -57.1 NC_001900.1 + 41086 0.66 0.606538
Target:  5'- gGGCC-AGGCCGg-UGAcCUCGCGGccgUGGa -3'
miRNA:   3'- -CCGGcUUCGGCagGCU-GAGCGCU---ACC- -5'
7360 3' -57.1 NC_001900.1 + 12746 0.67 0.585133
Target:  5'- gGGCCGGAucgucGcCCGUCCGACcauccUCaGCGAccacgucgUGGa -3'
miRNA:   3'- -CCGGCUU-----C-GGCAGGCUG-----AG-CGCU--------ACC- -5'
7360 3' -57.1 NC_001900.1 + 18510 0.67 0.574483
Target:  5'- cGGCUG-AGCUGUCU--CagGCGAUGGa -3'
miRNA:   3'- -CCGGCuUCGGCAGGcuGagCGCUACC- -5'
7360 3' -57.1 NC_001900.1 + 15274 0.67 0.568114
Target:  5'- uGGUCGAGGCCGUggccgcacgguucggCCGAgaCGcCGA-GGa -3'
miRNA:   3'- -CCGGCUUCGGCA---------------GGCUgaGC-GCUaCC- -5'
7360 3' -57.1 NC_001900.1 + 9138 0.67 0.563878
Target:  5'- gGGCCGGgugguGGCCGUCCGAUgacaGCc---- -3'
miRNA:   3'- -CCGGCU-----UCGGCAGGCUGag--CGcuacc -5'
7360 3' -57.1 NC_001900.1 + 45268 0.67 0.542832
Target:  5'- cGUCGAGGUCacgCCGAC-CGCGAaGGu -3'
miRNA:   3'- cCGGCUUCGGca-GGCUGaGCGCUaCC- -5'
7360 3' -57.1 NC_001900.1 + 16785 0.68 0.491487
Target:  5'- cGGCUcGGGCCGUucugCCGAacaugaccaaCUCGCcGAUGGu -3'
miRNA:   3'- -CCGGcUUCGGCA----GGCU----------GAGCG-CUACC- -5'
7360 3' -57.1 NC_001900.1 + 10218 0.68 0.491487
Target:  5'- uGCaGAGGCUGUCCGAaUCGCaGAgGGa -3'
miRNA:   3'- cCGgCUUCGGCAGGCUgAGCG-CUaCC- -5'
7360 3' -57.1 NC_001900.1 + 5599 0.68 0.491487
Target:  5'- cGCUGGAGCUGUCgGAgcUGCGcUGGg -3'
miRNA:   3'- cCGGCUUCGGCAGgCUgaGCGCuACC- -5'
7360 3' -57.1 NC_001900.1 + 34869 0.68 0.490482
Target:  5'- cGGCCcaGAGGCCGUgCCGccgaacgucuucaGCUUGCGAc-- -3'
miRNA:   3'- -CCGG--CUUCGGCA-GGC-------------UGAGCGCUacc -5'
7360 3' -57.1 NC_001900.1 + 21591 0.69 0.481482
Target:  5'- cGGCCGGcucaaGGCCGUgCGGCUCGg----- -3'
miRNA:   3'- -CCGGCU-----UCGGCAgGCUGAGCgcuacc -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.