miRNA display CGI


Results 1 - 20 of 110 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
19269 5' -55.8 NC_004685.1 + 68159 1.1 0.000926
Target:  5'- gGCAUCGCCGAACUGGCCAUCCACCACc -3'
miRNA:   3'- -CGUAGCGGCUUGACCGGUAGGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 26236 0.77 0.183822
Target:  5'- -uGUCGCCGGACgcgccgGGCUugcgCCGCCACa -3'
miRNA:   3'- cgUAGCGGCUUGa-----CCGGua--GGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 45365 0.77 0.20971
Target:  5'- aCGUCGCCGAACccGCCugcCCGCCACg -3'
miRNA:   3'- cGUAGCGGCUUGacCGGua-GGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 50154 0.76 0.220917
Target:  5'- aGCAggUGCCGAACgGGCCGUCgucuuucaGCCACg -3'
miRNA:   3'- -CGUa-GCGGCUUGaCCGGUAGg-------UGGUG- -5'
19269 5' -55.8 NC_004685.1 + 16305 0.76 0.226709
Target:  5'- uCAcCGCCGAcgaGCUGGCCAgcaUCGCCGCg -3'
miRNA:   3'- cGUaGCGGCU---UGACCGGUa--GGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 40516 0.76 0.238681
Target:  5'- gGCGUUccugGCCGGACUguucGGCUAUCCgACCGCa -3'
miRNA:   3'- -CGUAG----CGGCUUGA----CCGGUAGG-UGGUG- -5'
19269 5' -55.8 NC_004685.1 + 2302 0.74 0.29917
Target:  5'- ----gGCCGAAauuccCUGGCCuUCCACCGCu -3'
miRNA:   3'- cguagCGGCUU-----GACCGGuAGGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 13750 0.74 0.321815
Target:  5'- gGCAUCGCCGGGCUGcuGCUggCgUACCGCc -3'
miRNA:   3'- -CGUAGCGGCUUGAC--CGGuaG-GUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 51369 0.73 0.33761
Target:  5'- cGCGUCGCCacuGC-GGCCGUC-GCCACu -3'
miRNA:   3'- -CGUAGCGGcu-UGaCCGGUAGgUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 17355 0.73 0.345717
Target:  5'- aGCGggCGCgGcAACUGGCCcgCUACUACg -3'
miRNA:   3'- -CGUa-GCGgC-UUGACCGGuaGGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 17265 0.73 0.345717
Target:  5'- gGCAUCaGCUGGAg-GGUCGUCgGCCACg -3'
miRNA:   3'- -CGUAG-CGGCUUgaCCGGUAGgUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 1133 0.72 0.370865
Target:  5'- cGCAUCGgggcgcccgcaUCGGACUGGCCGgggCCAcagccCCGCa -3'
miRNA:   3'- -CGUAGC-----------GGCUUGACCGGUa--GGU-----GGUG- -5'
19269 5' -55.8 NC_004685.1 + 53760 0.72 0.387426
Target:  5'- cGCuUCGCCGAGCUGGaaGUCCcagaacaGCUGCu -3'
miRNA:   3'- -CGuAGCGGCUUGACCggUAGG-------UGGUG- -5'
19269 5' -55.8 NC_004685.1 + 67879 0.72 0.397234
Target:  5'- cGCGgcgCGCCGGcgucgcGCUGGCCGUCgaacacugggCAUCACu -3'
miRNA:   3'- -CGUa--GCGGCU------UGACCGGUAG----------GUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 67248 0.71 0.424778
Target:  5'- cGCGcCGUCGAACaGGCCAccggCgGCCGCg -3'
miRNA:   3'- -CGUaGCGGCUUGaCCGGUa---GgUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 58355 0.71 0.434209
Target:  5'- cGgGUCGCCGGucGCgcacGGcCCAUCCACgACu -3'
miRNA:   3'- -CgUAGCGGCU--UGa---CC-GGUAGGUGgUG- -5'
19269 5' -55.8 NC_004685.1 + 13879 0.71 0.434209
Target:  5'- uGUGUCGaguaccCCGGuguGCUGGCCAUcuggacgagCCACCACg -3'
miRNA:   3'- -CGUAGC------GGCU---UGACCGGUA---------GGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 65537 0.71 0.443761
Target:  5'- gGCAagcUCGCCGAggucgucggagaACUGGCCGaUC-CCACa -3'
miRNA:   3'- -CGU---AGCGGCU------------UGACCGGUaGGuGGUG- -5'
19269 5' -55.8 NC_004685.1 + 22998 0.71 0.454403
Target:  5'- gGCAUCGCCGccGAUaGGCCcggugggaugccacCCGCCACa -3'
miRNA:   3'- -CGUAGCGGC--UUGaCCGGua------------GGUGGUG- -5'
19269 5' -55.8 NC_004685.1 + 51540 0.71 0.463212
Target:  5'- aCAUCGCCuuGAGCgccgcGGUCGgugCCACCGCc -3'
miRNA:   3'- cGUAGCGG--CUUGa----CCGGUa--GGUGGUG- -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.