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
2385 3' -59.5 NC_001416.1 + 10816 0.66 0.431984
Target:  5'- ---aCAGgGGgGGCAGgugaaggacUCCUUCGGCg -3'
miRNA:   3'- aaugGUCgCCgCCGUU---------AGGAGGCCGg -5'
2385 3' -59.5 NC_001416.1 + 20438 0.67 0.36842
Target:  5'- cUGCCAG-GGCGGCAaaaacGUCCgagacgaaugCCaGGUCa -3'
miRNA:   3'- aAUGGUCgCCGCCGU-----UAGGa---------GG-CCGG- -5'
2385 3' -59.5 NC_001416.1 + 12513 0.67 0.359878
Target:  5'- aUUGCaCAGaauauGGCGGCGAUgCUgaCCGGCa -3'
miRNA:   3'- -AAUG-GUCg----CCGCCGUUAgGA--GGCCGg -5'
2385 3' -59.5 NC_001416.1 + 16801 0.69 0.296606
Target:  5'- gUACCAGcCGGgGGCAGgcacaCCgcgCCGGgCu -3'
miRNA:   3'- aAUGGUC-GCCgCCGUUa----GGa--GGCCgG- -5'
2385 3' -59.5 NC_001416.1 + 403 0.69 0.296606
Target:  5'- -gGCCAGCGa-GGCAGaUCUCCaGCCa -3'
miRNA:   3'- aaUGGUCGCcgCCGUUaGGAGGcCGG- -5'
2385 3' -59.5 NC_001416.1 + 10911 0.7 0.242321
Target:  5'- -cGCUGGCGGUGGCGA-CCggugcgCUGGCg -3'
miRNA:   3'- aaUGGUCGCCGCCGUUaGGa-----GGCCGg -5'
2385 3' -59.5 NC_001416.1 + 18976 0.75 0.104713
Target:  5'- uUUGCCGcacuuGCGGUGaCAGUCaCUCCGGCCc -3'
miRNA:   3'- -AAUGGU-----CGCCGCcGUUAG-GAGGCCGG- -5'
2385 3' -59.5 NC_001416.1 + 18298 1.09 0.000293
Target:  5'- aUUACCAGCGGCGGCAAUCCUCCGGCCu -3'
miRNA:   3'- -AAUGGUCGCCGCCGUUAGGAGGCCGG- -5'
2385 3' -59.5 NC_001416.1 + 17680 0.69 0.296606
Target:  5'- cUGCCGGU-GCGGCAAUCCggaacgauaCCGacGCCg -3'
miRNA:   3'- aAUGGUCGcCGCCGUUAGGa--------GGC--CGG- -5'
2385 3' -59.5 NC_001416.1 + 3848 0.68 0.309293
Target:  5'- -gACCGGCGcugcggcguaauacGCGGCAauuucaccaAUCCagCCGGUCa -3'
miRNA:   3'- aaUGGUCGC--------------CGCCGU---------UAGGa-GGCCGG- -5'
2385 3' -59.5 NC_001416.1 + 1955 0.68 0.343212
Target:  5'- aUACCGGCGGUcaGGUAAgCCacaCGGUCa -3'
miRNA:   3'- aAUGGUCGCCG--CCGUUaGGag-GCCGG- -5'
2385 3' -59.5 NC_001416.1 + 3457 0.66 0.41317
Target:  5'- -cACCGGCa-CGGCAGU--UCCGGCUg -3'
miRNA:   3'- aaUGGUCGccGCCGUUAggAGGCCGG- -5'
2385 3' -59.5 NC_001416.1 + 6508 0.66 0.422514
Target:  5'- aUGCgaCGGCGGCGGUAAgCCgggUCC-GCCa -3'
miRNA:   3'- aAUG--GUCGCCGCCGUUaGG---AGGcCGG- -5'
2385 3' -59.5 NC_001416.1 + 5522 0.66 0.451291
Target:  5'- -aACC-GCuGCGGUGAUCUgcgcguucacgUCCGGCUg -3'
miRNA:   3'- aaUGGuCGcCGCCGUUAGG-----------AGGCCGG- -5'
2385 3' -59.5 NC_001416.1 + 2711 0.66 0.451291
Target:  5'- -cACgGGCaGCGGCAAguUCUUCCuGUCg -3'
miRNA:   3'- aaUGgUCGcCGCCGUU--AGGAGGcCGG- -5'
2385 3' -59.5 NC_001416.1 + 9248 0.66 0.451291
Target:  5'- -cGCCAGCGugaaGCuGGUA--UCUCCGGCa -3'
miRNA:   3'- aaUGGUCGC----CG-CCGUuaGGAGGCCGg -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.