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
1380 5' -64.8 NC_001335.1 + 50914 0.66 0.241785
Target:  5'- cCCGGCCUGucGGCCuGGCUGAA-CGCc- -3'
miRNA:   3'- uGGCCGGGC--UCGG-CCGGCUUgGCGuu -5'
1380 5' -64.8 NC_001335.1 + 9821 0.66 0.241785
Target:  5'- aGCCGGCCauCGAGUCGuCUGGuggugaugcgugACCGCAGa -3'
miRNA:   3'- -UGGCCGG--GCUCGGCcGGCU------------UGGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 4839 0.66 0.241785
Target:  5'- aGCCGGaaCGAuUCGGuuGAGCCGUAAc -3'
miRNA:   3'- -UGGCCggGCUcGGCCggCUUGGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 2406 0.67 0.218851
Target:  5'- cGCCGGCCU-AGCCGGCCcAGCU-CAc -3'
miRNA:   3'- -UGGCCGGGcUCGGCCGGcUUGGcGUu -5'
1380 5' -64.8 NC_001335.1 + 32899 0.67 0.218851
Target:  5'- gGCCGGCUCGGGCUGGgCagGGGCgGUg- -3'
miRNA:   3'- -UGGCCGGGCUCGGCCgG--CUUGgCGuu -5'
1380 5' -64.8 NC_001335.1 + 5895 0.67 0.218851
Target:  5'- uCgGGCCUGGucuGCCuGCCGAuACCGCAc -3'
miRNA:   3'- uGgCCGGGCU---CGGcCGGCU-UGGCGUu -5'
1380 5' -64.8 NC_001335.1 + 16624 0.67 0.202892
Target:  5'- uGCCGGUagCGAGCacagGGCCGAGgcCCGUGAa -3'
miRNA:   3'- -UGGCCGg-GCUCGg---CCGGCUU--GGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 16212 0.67 0.197801
Target:  5'- gGCCGGUCUGcuGGCCGGUCu-GCCGUc- -3'
miRNA:   3'- -UGGCCGGGC--UCGGCCGGcuUGGCGuu -5'
1380 5' -64.8 NC_001335.1 + 21289 0.67 0.197801
Target:  5'- gACUGGCUCcggGAGCUGGCUGAugaggACgGCAAc -3'
miRNA:   3'- -UGGCCGGG---CUCGGCCGGCU-----UGgCGUU- -5'
1380 5' -64.8 NC_001335.1 + 26655 0.68 0.178539
Target:  5'- uUCGGCUCGGuccCCGGCUGAuCCGCGu -3'
miRNA:   3'- uGGCCGGGCUc--GGCCGGCUuGGCGUu -5'
1380 5' -64.8 NC_001335.1 + 38271 0.68 0.173991
Target:  5'- aACCGGCuuaguuCCGcucGGCCGGCCagcCCGCGAc -3'
miRNA:   3'- -UGGCCG------GGC---UCGGCCGGcuuGGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 49005 0.69 0.156817
Target:  5'- gUCGGCCagcguugugaCGAGCCGGUCGAugCGg-- -3'
miRNA:   3'- uGGCCGG----------GCUCGGCCGGCUugGCguu -5'
1380 5' -64.8 NC_001335.1 + 16271 0.69 0.148817
Target:  5'- gACCGGCCaCGAuGCCGaccaGCgGAGCUGCu- -3'
miRNA:   3'- -UGGCCGG-GCU-CGGC----CGgCUUGGCGuu -5'
1380 5' -64.8 NC_001335.1 + 48293 0.7 0.120412
Target:  5'- -gCGGCC--GGCCGGCCGAACCaCAc -3'
miRNA:   3'- ugGCCGGgcUCGGCCGGCUUGGcGUu -5'
1380 5' -64.8 NC_001335.1 + 42335 0.71 0.114142
Target:  5'- aAUCGG-CCGA-CCGGCgCGAGCCGCGu -3'
miRNA:   3'- -UGGCCgGGCUcGGCCG-GCUUGGCGUu -5'
1380 5' -64.8 NC_001335.1 + 49083 0.71 0.108178
Target:  5'- gACCGGCUCGucacaacGCUGGCCG-ACgGCAAc -3'
miRNA:   3'- -UGGCCGGGCu------CGGCCGGCuUGgCGUU- -5'
1380 5' -64.8 NC_001335.1 + 596 0.72 0.091996
Target:  5'- gGCCGGCaCGaAGUCGGUCG-GCCGCAGa -3'
miRNA:   3'- -UGGCCGgGC-UCGGCCGGCuUGGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 26604 0.72 0.087132
Target:  5'- -aCGGCCuUGAGCCGGCCGu-CgGCGAu -3'
miRNA:   3'- ugGCCGG-GCUCGGCCGGCuuGgCGUU- -5'
1380 5' -64.8 NC_001335.1 + 48384 0.73 0.078987
Target:  5'- uGCUGGCCCacGccaagggugugguucGGCCGGCCG-GCCGCGAc -3'
miRNA:   3'- -UGGCCGGG--C---------------UCGGCCGGCuUGGCGUU- -5'
1380 5' -64.8 NC_001335.1 + 32966 0.74 0.065189
Target:  5'- cCCaGCCCGAGCCGGCCccggcuccugagccuGAgACCGCGc -3'
miRNA:   3'- uGGcCGGGCUCGGCCGG---------------CU-UGGCGUu -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.