miRNA display CGI


Results 1 - 20 of 54 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
14022 3' -52.5 NC_003521.1 + 139936 0.66 0.994576
Target:  5'- gGCACGGCcGGAaggccagcucguccaGGGCGcUCuUGAGGCg -3'
miRNA:   3'- -CGUGUCGaCCUa--------------CUCGC-AGuACUCUG- -5'
14022 3' -52.5 NC_003521.1 + 27466 0.66 0.994496
Target:  5'- aGCGCcaGGCUGGccagGucCGUCAUGuGGCg -3'
miRNA:   3'- -CGUG--UCGACCua--CucGCAGUACuCUG- -5'
14022 3' -52.5 NC_003521.1 + 38142 0.66 0.994496
Target:  5'- aGCuuuacCGGCgUGGGUGGGUuUCA-GAGACg -3'
miRNA:   3'- -CGu----GUCG-ACCUACUCGcAGUaCUCUG- -5'
14022 3' -52.5 NC_003521.1 + 116884 0.66 0.99365
Target:  5'- gGCGCGGCUGcGgcGGcGCGcCGgcggGAGACc -3'
miRNA:   3'- -CGUGUCGAC-CuaCU-CGCaGUa---CUCUG- -5'
14022 3' -52.5 NC_003521.1 + 128182 0.66 0.992701
Target:  5'- cGUGCAGCaccGGGUGgcacAGCGUCuUGAGcGCg -3'
miRNA:   3'- -CGUGUCGa--CCUAC----UCGCAGuACUC-UG- -5'
14022 3' -52.5 NC_003521.1 + 219274 0.66 0.992701
Target:  5'- cGCAgGgGCUGGcacAUGAGCGggccCAUGaAGGCc -3'
miRNA:   3'- -CGUgU-CGACC---UACUCGCa---GUAC-UCUG- -5'
14022 3' -52.5 NC_003521.1 + 106596 0.66 0.992701
Target:  5'- cGguCGGUgaGGAccgUGAGCaUCGUGGGACg -3'
miRNA:   3'- -CguGUCGa-CCU---ACUCGcAGUACUCUG- -5'
14022 3' -52.5 NC_003521.1 + 119593 0.66 0.992701
Target:  5'- cGCugGGCggcGGGUGcAGCGUCucGUGcugcagguGGACg -3'
miRNA:   3'- -CGugUCGa--CCUAC-UCGCAG--UAC--------UCUG- -5'
14022 3' -52.5 NC_003521.1 + 108944 0.66 0.991643
Target:  5'- uGCGCGGCUGucGGUG-GCGUCuAUGAc-- -3'
miRNA:   3'- -CGUGUCGAC--CUACuCGCAG-UACUcug -5'
14022 3' -52.5 NC_003521.1 + 130013 0.66 0.991643
Target:  5'- cGCGCAacggccGCUGGcuuucAGCGUCAUGgagGGGCa -3'
miRNA:   3'- -CGUGU------CGACCuac--UCGCAGUAC---UCUG- -5'
14022 3' -52.5 NC_003521.1 + 141954 0.66 0.990467
Target:  5'- gGCGCccaccuGCUGGGcgacGAGCGUCAgGAGcuGCa -3'
miRNA:   3'- -CGUGu-----CGACCUa---CUCGCAGUaCUC--UG- -5'
14022 3' -52.5 NC_003521.1 + 124483 0.66 0.990467
Target:  5'- cGgGCGGCUGGucguAGCG-CGUGAGGa -3'
miRNA:   3'- -CgUGUCGACCuac-UCGCaGUACUCUg -5'
14022 3' -52.5 NC_003521.1 + 126868 0.66 0.990467
Target:  5'- uCGCGGCaGGccu-GCGUCAgUGAGACg -3'
miRNA:   3'- cGUGUCGaCCuacuCGCAGU-ACUCUG- -5'
14022 3' -52.5 NC_003521.1 + 50030 0.66 0.990467
Target:  5'- aGCGCAGCaGGGccuuuuugaGGGCGUCGU-AGGCc -3'
miRNA:   3'- -CGUGUCGaCCUa--------CUCGCAGUAcUCUG- -5'
14022 3' -52.5 NC_003521.1 + 122710 0.67 0.989165
Target:  5'- gGCGgGGCUGGA--GGCgGUCGUGgucguGGGCg -3'
miRNA:   3'- -CGUgUCGACCUacUCG-CAGUAC-----UCUG- -5'
14022 3' -52.5 NC_003521.1 + 221834 0.67 0.989165
Target:  5'- uGCaACAGCUGGccgcuGUGGGCGUCcaccaccaGGGAa -3'
miRNA:   3'- -CG-UGUCGACC-----UACUCGCAGua------CUCUg -5'
14022 3' -52.5 NC_003521.1 + 59171 0.67 0.989165
Target:  5'- gGCACGGCgccgcGGGCaGUCAgGAGACg -3'
miRNA:   3'- -CGUGUCGaccuaCUCG-CAGUaCUCUG- -5'
14022 3' -52.5 NC_003521.1 + 203539 0.67 0.989165
Target:  5'- gGCGCAGCUGugucacaaGAUGGGgGcCAUGAaucucGACc -3'
miRNA:   3'- -CGUGUCGAC--------CUACUCgCaGUACU-----CUG- -5'
14022 3' -52.5 NC_003521.1 + 20646 0.67 0.987729
Target:  5'- cGCGC-GCUGG-UGGGCGccuaCGUGAuGACc -3'
miRNA:   3'- -CGUGuCGACCuACUCGCa---GUACU-CUG- -5'
14022 3' -52.5 NC_003521.1 + 17184 0.67 0.987729
Target:  5'- -gGCAGCUGGGcaGGCGcaUCGUG-GACg -3'
miRNA:   3'- cgUGUCGACCUacUCGC--AGUACuCUG- -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.