miRNA display CGI


Results 1 - 20 of 38 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
23908 3' -56.2 NC_005262.1 + 59632 0.66 0.708299
Target:  5'- aCCUcGCGCgccAGUCUcuccucGCGCUGGucGCCg -3'
miRNA:   3'- aGGA-CGCG---UCAGAac----CGCGACUu-CGG- -5'
23908 3' -56.2 NC_005262.1 + 33287 0.66 0.686817
Target:  5'- aCCgcaucGCGCGcaCgccgGGCGCcGAAGCCg -3'
miRNA:   3'- aGGa----CGCGUcaGaa--CCGCGaCUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 1844 0.66 0.686817
Target:  5'- -gCUGCGCAugcgguugccuG-CUUGGuCGCguaggUGAAGCCa -3'
miRNA:   3'- agGACGCGU-----------CaGAACC-GCG-----ACUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 9648 0.66 0.665129
Target:  5'- gUCCaaaagaGUGguGUC-UGGCGCUGccGCUc -3'
miRNA:   3'- -AGGa-----CGCguCAGaACCGCGACuuCGG- -5'
23908 3' -56.2 NC_005262.1 + 13386 0.66 0.654234
Target:  5'- cCCUcGCGCuc-CgcGGCGCUGAucGCCg -3'
miRNA:   3'- aGGA-CGCGucaGaaCCGCGACUu-CGG- -5'
23908 3' -56.2 NC_005262.1 + 51669 0.67 0.644411
Target:  5'- cUCCaGCGCGGcgaUCUgcucgcgcgcacggcGGCGCUGAuugcGCCc -3'
miRNA:   3'- -AGGaCGCGUC---AGAa--------------CCGCGACUu---CGG- -5'
23908 3' -56.2 NC_005262.1 + 18490 0.67 0.643319
Target:  5'- uUCCUGUGCAG-CUUucCGUacaGAAGCCg -3'
miRNA:   3'- -AGGACGCGUCaGAAccGCGa--CUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 6181 0.67 0.625838
Target:  5'- cUCCUGCGCcucgcGGUCauaGGCGCgGAAcgauuccuuguugguGCCc -3'
miRNA:   3'- -AGGACGCG-----UCAGaa-CCGCGaCUU---------------CGG- -5'
23908 3' -56.2 NC_005262.1 + 12025 0.67 0.621469
Target:  5'- aCCUGCGCaucGGUCaucccGUGCUGcgcAGCCa -3'
miRNA:   3'- aGGACGCG---UCAGaac--CGCGACu--UCGG- -5'
23908 3' -56.2 NC_005262.1 + 62295 0.67 0.621469
Target:  5'- gCCgcggGCGCGG-CUUGGUGUUu--GCCa -3'
miRNA:   3'- aGGa---CGCGUCaGAACCGCGAcuuCGG- -5'
23908 3' -56.2 NC_005262.1 + 2425 0.67 0.610552
Target:  5'- -gCUGCGCAGcggCUucacgucguucUGGCGCcaGAAGUCu -3'
miRNA:   3'- agGACGCGUCa--GA-----------ACCGCGa-CUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 11611 0.67 0.610552
Target:  5'- cUCCUGCacGCuGGUCaugcccucGGCGUcGAGGCCg -3'
miRNA:   3'- -AGGACG--CG-UCAGaa------CCGCGaCUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 17357 0.67 0.599655
Target:  5'- gUCCgGCGCGGgc--GGCGCggcGGGCCc -3'
miRNA:   3'- -AGGaCGCGUCagaaCCGCGac-UUCGG- -5'
23908 3' -56.2 NC_005262.1 + 14 0.67 0.599655
Target:  5'- cUCCUGCGCGGgc--GGCGUcGAuGGCa -3'
miRNA:   3'- -AGGACGCGUCagaaCCGCGaCU-UCGg -5'
23908 3' -56.2 NC_005262.1 + 2655 0.67 0.599655
Target:  5'- gCCUGCGCGG-CgccgGGCgGCguccuGGCCg -3'
miRNA:   3'- aGGACGCGUCaGaa--CCG-CGacu--UCGG- -5'
23908 3' -56.2 NC_005262.1 + 1159 0.67 0.587699
Target:  5'- gCC-GCGCGGgCUUGccauccuGCGCgGAAGCCc -3'
miRNA:   3'- aGGaCGCGUCaGAAC-------CGCGaCUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 61803 0.68 0.57795
Target:  5'- gCCUGCGCGGcgcaugcCUcGGCGCUcGAGUa -3'
miRNA:   3'- aGGACGCGUCa------GAaCCGCGAcUUCGg -5'
23908 3' -56.2 NC_005262.1 + 54462 0.68 0.550006
Target:  5'- aUCaGCGCAacGUCgaGGCGCUgcucgcggugcagccGAAGCCg -3'
miRNA:   3'- aGGaCGCGU--CAGaaCCGCGA---------------CUUCGG- -5'
23908 3' -56.2 NC_005262.1 + 52761 0.68 0.53513
Target:  5'- gCCUguugcugcGCGCGGUCUU-GCGCgacAGCCg -3'
miRNA:   3'- aGGA--------CGCGUCAGAAcCGCGacuUCGG- -5'
23908 3' -56.2 NC_005262.1 + 12929 0.69 0.514132
Target:  5'- aCCUGCGCGGc----GCGCUGAAGg- -3'
miRNA:   3'- aGGACGCGUCagaacCGCGACUUCgg -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.