miRNA display CGI


Results 1 - 20 of 24 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
28408 5' -53.3 NC_005946.1 + 95074 0.66 0.936033
Target:  5'- cGGCAGACGCaaugcUGUGcGCCaccauccugagGGCcaUGCCc -3'
miRNA:   3'- -CCGUCUGUGga---ACAUuCGG-----------UCG--ACGG- -5'
28408 5' -53.3 NC_005946.1 + 66266 0.66 0.936033
Target:  5'- uGGUGGugGCUgUGcacGAGCCcaAGCUGCa -3'
miRNA:   3'- -CCGUCugUGGaACa--UUCGG--UCGACGg -5'
28408 5' -53.3 NC_005946.1 + 97531 0.66 0.930761
Target:  5'- gGGUuacccGACAUCUUGgcAGCCAGagacgGCa -3'
miRNA:   3'- -CCGu----CUGUGGAACauUCGGUCga---CGg -5'
28408 5' -53.3 NC_005946.1 + 78991 0.66 0.930761
Target:  5'- aGGCGGcguACGCCa---GGGCCGGggGCCa -3'
miRNA:   3'- -CCGUC---UGUGGaacaUUCGGUCgaCGG- -5'
28408 5' -53.3 NC_005946.1 + 8246 0.66 0.91336
Target:  5'- uGCAuGGCGCCgucu-GGCCA-CUGCCu -3'
miRNA:   3'- cCGU-CUGUGGaacauUCGGUcGACGG- -5'
28408 5' -53.3 NC_005946.1 + 75132 0.66 0.907035
Target:  5'- gGGcCAGGCcggACCUgg-GAGCCAccCUGCCg -3'
miRNA:   3'- -CC-GUCUG---UGGAacaUUCGGUc-GACGG- -5'
28408 5' -53.3 NC_005946.1 + 82918 0.66 0.907035
Target:  5'- aGGCacagGGAgGCCUucagGgccccgGAGCCAGUcGCCa -3'
miRNA:   3'- -CCG----UCUgUGGAa---Ca-----UUCGGUCGaCGG- -5'
28408 5' -53.3 NC_005946.1 + 56125 0.67 0.900449
Target:  5'- cGGCuGugGCCgaagUGgagGGCCAGUUuCCa -3'
miRNA:   3'- -CCGuCugUGGa---ACau-UCGGUCGAcGG- -5'
28408 5' -53.3 NC_005946.1 + 59209 0.67 0.900449
Target:  5'- aGGcCAGACACCgc---GGCCuGC-GCCu -3'
miRNA:   3'- -CC-GUCUGUGGaacauUCGGuCGaCGG- -5'
28408 5' -53.3 NC_005946.1 + 79415 0.67 0.886514
Target:  5'- cGCccuGGCGCUggcGUcGGCCAGCaUGCCc -3'
miRNA:   3'- cCGu--CUGUGGaa-CAuUCGGUCG-ACGG- -5'
28408 5' -53.3 NC_005946.1 + 23682 0.67 0.886514
Target:  5'- aGGUAG-CACUUUGUGaccuuugcGGCCuuuuccaggAGCUGCg -3'
miRNA:   3'- -CCGUCuGUGGAACAU--------UCGG---------UCGACGg -5'
28408 5' -53.3 NC_005946.1 + 8887 0.68 0.838944
Target:  5'- -cCAGACACCUUGUcacGGUCA--UGCCg -3'
miRNA:   3'- ccGUCUGUGGAACAu--UCGGUcgACGG- -5'
28408 5' -53.3 NC_005946.1 + 76707 0.69 0.80299
Target:  5'- aGGCGGAguccacgucCACCUgGUGGGuCCAGCaUGaCCc -3'
miRNA:   3'- -CCGUCU---------GUGGAaCAUUC-GGUCG-AC-GG- -5'
28408 5' -53.3 NC_005946.1 + 45977 0.69 0.793551
Target:  5'- --aGGGCACCUUGgcgucGGGCCGaUUGCCg -3'
miRNA:   3'- ccgUCUGUGGAACa----UUCGGUcGACGG- -5'
28408 5' -53.3 NC_005946.1 + 20863 0.69 0.78395
Target:  5'- cGCGGugGCCcUGaGGGCaaaGGCUGCg -3'
miRNA:   3'- cCGUCugUGGaACaUUCGg--UCGACGg -5'
28408 5' -53.3 NC_005946.1 + 12627 0.69 0.7742
Target:  5'- gGGCAGACgACCUg--AGGgaCAGcCUGCCc -3'
miRNA:   3'- -CCGUCUG-UGGAacaUUCg-GUC-GACGG- -5'
28408 5' -53.3 NC_005946.1 + 57044 0.7 0.754289
Target:  5'- aGCGGcCugCUcccUGUcuGUCGGCUGCCu -3'
miRNA:   3'- cCGUCuGugGA---ACAuuCGGUCGACGG- -5'
28408 5' -53.3 NC_005946.1 + 22194 0.7 0.733902
Target:  5'- cGGCGGcUACCcuc-GGGCUGGCUGCCc -3'
miRNA:   3'- -CCGUCuGUGGaacaUUCGGUCGACGG- -5'
28408 5' -53.3 NC_005946.1 + 2185 0.7 0.723557
Target:  5'- cGGCAGACugCaaGUGcauaaacagGGCCAGCgaucCCg -3'
miRNA:   3'- -CCGUCUGugGaaCAU---------UCGGUCGac--GG- -5'
28408 5' -53.3 NC_005946.1 + 85071 0.71 0.702617
Target:  5'- cGCAGACGCCacucUGGGCagAGCUGCUc -3'
miRNA:   3'- cCGUCUGUGGaac-AUUCGg-UCGACGG- -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.