miRNA display CGI


Results 1 - 17 of 17 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
11963 5' -57.4 NC_003278.1 + 17783 0.66 0.493015
Target:  5'- cGGAAUC-CCCCuuccuGCAccagGGUggUGACCUCGu -3'
miRNA:   3'- -CCUUGGuGGGG-----CGUa---CCG--ACUGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 17797 0.66 0.482567
Target:  5'- aGAACUACaCCCGCAccgcccagGuGCUGGCCg-- -3'
miRNA:   3'- cCUUGGUG-GGGCGUa-------C-CGACUGGagu -5'
11963 5' -57.4 NC_003278.1 + 12488 0.66 0.472228
Target:  5'- aGGucuauGCCGCCaCCGcCAUGGC---CCUCAu -3'
miRNA:   3'- -CCu----UGGUGG-GGC-GUACCGacuGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 15529 0.66 0.472228
Target:  5'- cGAAUgGCCCa--GUGGCUGGCCg-- -3'
miRNA:   3'- cCUUGgUGGGgcgUACCGACUGGagu -5'
11963 5' -57.4 NC_003278.1 + 10432 0.66 0.462001
Target:  5'- -cAGgCGCCCgGCcaAUGGCUGacaGCCUCGa -3'
miRNA:   3'- ccUUgGUGGGgCG--UACCGAC---UGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 31260 0.66 0.451893
Target:  5'- cGGAGCaGCCUgGC--GGCgGGCCUCGg -3'
miRNA:   3'- -CCUUGgUGGGgCGuaCCGaCUGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 2320 0.66 0.441906
Target:  5'- cGAGCCGCCgCUGUcuauggaggGGCUGGCCa-- -3'
miRNA:   3'- cCUUGGUGG-GGCGua-------CCGACUGGagu -5'
11963 5' -57.4 NC_003278.1 + 8508 0.67 0.432046
Target:  5'- --cGCCACCCUGCuGUGccuGCUGAUCUUc -3'
miRNA:   3'- ccuUGGUGGGGCG-UAC---CGACUGGAGu -5'
11963 5' -57.4 NC_003278.1 + 14229 0.67 0.432046
Target:  5'- cGGcGGCgCGCCCgGCGagacGGCUGACCcCAu -3'
miRNA:   3'- -CC-UUG-GUGGGgCGUa---CCGACUGGaGU- -5'
11963 5' -57.4 NC_003278.1 + 15763 0.67 0.393932
Target:  5'- aGGcACCGCCCagauCGCAgcggacccaGGCUGACCa-- -3'
miRNA:   3'- -CCuUGGUGGG----GCGUa--------CCGACUGGagu -5'
11963 5' -57.4 NC_003278.1 + 10871 0.68 0.349464
Target:  5'- aGGAGaCGCUgCGCGUaGCUGACUUCGg -3'
miRNA:   3'- -CCUUgGUGGgGCGUAcCGACUGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 33244 0.69 0.308689
Target:  5'- uGGGcACCACCCUGUuguUGGCUgaggcuggcgaGACCUUc -3'
miRNA:   3'- -CCU-UGGUGGGGCGu--ACCGA-----------CUGGAGu -5'
11963 5' -57.4 NC_003278.1 + 23202 0.7 0.251184
Target:  5'- uGGAACCGCCUacaGCGUGGCaGcgccACgCUCAg -3'
miRNA:   3'- -CCUUGGUGGGg--CGUACCGaC----UG-GAGU- -5'
11963 5' -57.4 NC_003278.1 + 29509 0.73 0.176841
Target:  5'- aGGAcuACCGCCCCGaGUGGCUGgACUg-- -3'
miRNA:   3'- -CCU--UGGUGGGGCgUACCGAC-UGGagu -5'
11963 5' -57.4 NC_003278.1 + 30161 0.74 0.145472
Target:  5'- cGGAugGCCAUCa-GCAggaagUGGCUGACCUCGa -3'
miRNA:   3'- -CCU--UGGUGGggCGU-----ACCGACUGGAGU- -5'
11963 5' -57.4 NC_003278.1 + 29752 0.75 0.122716
Target:  5'- cGGGCCugCgCCGC-UGGCUGACC-CAg -3'
miRNA:   3'- cCUUGGugG-GGCGuACCGACUGGaGU- -5'
11963 5' -57.4 NC_003278.1 + 7940 1.1 0.000277
Target:  5'- aGGAACCACCCCGCAUGGCUGACCUCAc -3'
miRNA:   3'- -CCUUGGUGGGGCGUACCGACUGGAGU- -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.